The Poaceae family of grasses includes the tribe Triticeae which harbours three of the leading crop species in Europe and the temperate world: wheat, barley and cereal rye. The group’s research focus is concentrated on the dynamics and diversity of the genomes present in these three species, seeking to understand how these underpin the agronomic performance of these crop species. A particular emphasis is placed on acquiring DNA sequence from each species, with the initial goal of deriving a high quality reference genome sequence. Advances in DNA sequencing technology have resulted in a marked reduction in the cost of acquiring sequence, so this activity has expanded into an   exploration of Triticeae pan-genomes. The technology is being used to improve the means of capturing the allelic diversity represented in the collections of Triticeae and other crop species curated by the IPK Federal Ex situ Gene Bank. This information is being utilised to deduce the genetic basis of traits of agronomic importance, such as plant architecture, chloroplast development and resistance to viruses.

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Selected projects:

SHAPE II – structural genome variation, haplotype diversity and the barley pan-genome – Unlocking structural genome diversity for barley breeding. (BMBF)

Genebank 2.0 - Genomics-based exploitation of wheat genetic resources for plant breeding. (BMBF)

AGENT - Activated GEnebank NeTwork (EU H2020)

BARN - BARley yield associated Network (DFG, ERA-CAPS 3rd call)

SMOOTH - Genetic control of barb/trichome formation on barley awns and stigmata – or, why does cultivated barley need rough awns? (DFG)

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Boyny, Zsa Zsa Friederique
Lab Technicians
Jaroschinsky, Pascal
Knauft, Manuela
Koenig, Susanne
Pohl, Jacqueline
Svoboda, Dagmar
Swetik, Sylvia
Trnka, Katrin
Ziems, Mary

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Huang Y, Maurer A, Giehl R F H, Zhao S, Golan G, Thirulogachandar V, Li G, Zhao Y, Trautewig C, Himmelbach A, Börner A, Jayakodi M, Stein N, Mascher M, Pillen K, Schnurbusch T:

Dynamic phytomeric growth contributes to local adaptation in barley. Mol. Biol. Evol. 41 (2024) msae011. https://dx.doi.org/10.1093/molbev/msae011

Pidon H, Ruge-Wehling B, Will T, Habekuß A, Wendler N, Oldach K, Maasberg-Prelle A, Korzun V, Stein N:

High-resolution mapping of Ryd4Hb, a major resistance gene to Barley yellow dwarf virus from Hordeum bulbosum. Theor. Appl. Genet. 137 (2024) 60. https://dx.doi.org/10.1007/s00122-024-04542-y

Schreiber M, Jayakodi M, Stein N, Mascher M:

Plant pangenomes for crop improvement, biodiversity and evolution. Nat. Rev. Genet. (2024) Epub ahead of print. https://dx.doi.org/10.1038/s41576-024-00691-4

Schreiber M, Wonneberger R, Haaning A M, Coulter M, Russell J, Himmelbach A, Fiebig A, Muehlbauer G J, Stein N, Waugh R:

Genomic resources for a historical collection of cultivated two-row European spring barley genotypes. Sci. Data 11 (2024) 66. https://dx.doi.org/10.1038/s41597-023-02850-4


Barchi L, Aprea G, Rabanus-Wallace M T, Toppino L, Alonso D, Portis E, Lanteri S, Gaccione L, Omondi E, van Zonneveld M, Schafleitner R, Ferrante P, Börner A, Stein N, Díez M J, Lefebvre V, Salinier J, Boyaci H F, Finkers R, Brouwer M, Bovy A G, Rotino G L, Prohens J, Giuliano G:

Analysis of >3400 worldwide eggplant accessions reveals two independent domestication events and multiple migration-diversification routes. Plant J. 116 (2023) 1667-1680. https://dx.doi.org/10.1111/tpj.16455

El Hanafi S, Jiang Y, Kehel Z, Schulthess A W, Zhao Y, Mascher M, Haupt M, Himmelbach A, Stein N, Amri A, Reif J C:

Genomic predictions to leverage phenotypic data across genebanks. Front. Plant Sci. 14 (2023) 1227656. https://dx.doi.org/10.3389/fpls.2023.1227656

Hollensteiner J, Schneider D, Poehlein A, Himmelbach A, Daniel R:

Metagenome-assembled genomes from particle-associated microbial communities in the mesopelagic zone of the Pacific Ocean. Microbiol. Resour. Announc. 12 (2023) e0061423. https://dx.doi.org/10.1128/MRA.00614-23

Huang Y, Kamal R, Shanmugaraj N, Rutten T, Thirulogachandar V, Zhao S, Hoffie I, Hensel G, Rajaraman J, Moya Y A T, Hajirezaei M-R, Himmelbach A, Poursarebani N, Lundqvist U, Kumlehn J, Stein N, von Wirén N, Mascher M, Melzer M, Schnurbusch T:

A molecular framework for grain number determination in barley. Sci. Adv. 9 (2023) eadd0324. https://dx.doi.org/10.1126/sciadv.add0324

Jayakodi M, Golicz A A, Kreplak J, Fechete L I, Angra D, Bednář P, Bornhofen E, Zhang H, Boussageon R, Kaur S, Cheung K, Čížková J, Gundlach H, Hallab A, Imbert B, Keeble-Gagnère G, Koblížková A, Kobrlová L, Krejčí P, Mouritzen T W, Neumann P, Nadzieja M, Nielsen L K, Novák P, Orabi J, Padmarasu S, Robertson-Shersby-Harvie T, Robledillo L Á, Schiemann A, Tanskanen J, Törönen P, Warsame A O, Wittenberg A H J, Himmelbach A, Aubert G, Courty P-E, Doležel J, Holm L U, Janss L L, Khazaei H, Macas J, Mascher M, Smýkal P, Snowdon R J, Stein N, Stoddard F L, Stougaard J, Tayeh N, Torres A M, Usadel B, Schubert I, OSullivan D M, Schulman A H, Andersen S U:

The giant diploid faba genome unlocks variation in a global protein crop. Nature 615 (2023) 652-659. https://dx.doi.org/10.1038/s41586-023-05791-5

König P, Beier S, Mascher M, Stein N, Lange M, Scholz U:

DivBrowse—interactive visualization and exploratory data analysis of variant call matrices. GigaScience 12 (2023) giad025. https://dx.doi.org/10.1093/gigascience/giad025

Kubalová I, Câmara A S, Cápal P, Beseda T, Rouillard J-M, Krause Gina M, Holušová K, Toegelová H, Himmelbach A, Stein N, Houben A, Doležel J, Mascher M, Šimková H, Schubert V:

Helical coiling of metaphase chromatids. Nucleic Acids Res. 51 (2023) 2641–2654. https://dx.doi.org/10.1093/nar/gkad028

Kuo Y-T, Câmara A S, Schubert V, Neumann P, Macas J, Melzer M, Chen J, Fuchs J, Abel S, Klocke E, Huettel B, Himmelbach A, Demidov D, Dunemann F, Mascher M, Ishii T, Marques A, Houben A:

Holocentromeres can consist of merely a few megabase-sized satellite arrays. Nat. Commun. 14 (2023) 3502. https://dx.doi.org/10.1038/s41467-023-38922-7

Kurra V:

Impact of resistance genes on cereal dwarf virus key epidemiological parameters in barley. (Master Thesis) Göttingen, Georg-August-Universität Göttingen, Fakultät für Agrarwissenschaften (2023) 45 pp.

McLeod L, Barchi L, Tumino G, Tripodi P, Salinier J, Gros C, Boyaci H F, Ozalp R, Borovsky Y, Schafleitner R, Barchenger D, Finkers R, Brouwer M, Stein N, Rabanus-Wallace M T, Giuliano G, Voorrips R, Paran I, Lefebvre V:

Multi-environment association study highlights candidate genes for robust agronomic quantitative trait loci in a novel worldwide Capsicum core collection. Plant J. 116 (2023) 1508-1528. https://dx.doi.org/10.1111/tpj.16425

Narisetti N, Awais M, Khan M, Stolzenburg F, Stein N, Gladilin E:

Awn image analysis and phenotyping using BarbNet. Plant Phenomics 5 (2023) 0081. https://dx.doi.org/10.34133/plantphenomics.0081

Ost C, Cao H X, Nguyen T L, Himmelbach A, Mascher M, Stein N, Humbeck K:

Drought-stress-related reprogramming of gene expression in barley involves differential histone modifications at ABA-related genes. Int. J. Mol. Sci. 24 (2023) 12065. https://dx.doi.org/10.3390/ijms241512065

Ponraj D S, Lund M, Lange J, Poehlein A, Himmelbach A, Falstie-Jensen T, Jorgensen N P, Ravn C, Brüggemann H:

Shotgun sequencing of sonication fluid for the diagnosis of orthopaedic implant-associated infections with Cutibacterium acnes as suspected causative agent. Front. Cell Infect. Microbiol. 13 (2023) 1165017. https://dx.doi.org/10.3389/fcimb.2023.1165017

Rabanus-Wallace M T, Stein N:

Accurate, automated taxonomic assignment of genebank accessions: a new method demonstrated using high-throughput marker data from 10,000 Capsicum spp. accessions. Theor. Appl. Genet. 136 (2023) 208. https://dx.doi.org/10.1007/s00122-023-04441-8

Strittmatter C S, Poehlein A, Himmelbach A, Daniel R, Steinbüchel A:

Medium-chain-length fatty acid catabolism in Cupriavidus necator H16: Transcriptome sequencing reveals differences from long-chain-length fatty acid beta-oxidation and involvement of several homologous genes. Appl. Environ. Microbiol. 89 (2023) e0142822. https://dx.doi.org/10.1128/aem.01428-22

Varshney R K, Stein N, Reif J:

Professor Andreas Graner: driven by the quest to unlock crop plant genomes for conservation and utilization of germplasm for breeding. Plant Biotechnol. J. 21 (2023) 2426-2432. https://dx.doi.org/10.1111/pbi.14143

Wonneberger R, Schreiber M, Haaning A, Muehlbauer G J, Waugh R, Stein N:

Major chromosome 5H haplotype switch structures the European two-rowed spring barley germplasm of the past 190 years. Theor. Appl. Genet. 136 (2023) 174. https://dx.doi.org/10.1007/s00122-023-04418-7


Abdollahi Sisi N, Stein N, Himmelbach A, Mohammadi S A:

High-density linkage mapping of agronomic trait QTLs in wheat under water deficit condition using genotyping by sequencing (GBS). Plants 11 (2022) 2533. https://dx.doi.org/10.3390/plants11192533

Acevedo-Garcia J, Walden K, Leissing F, Baumgarten K, Drwiega K, Kwaaitaal M, Reinstädler A, Freh M, Dong X, James G V, Baus L C, Mascher M, Stein N, Schneeberger K, Brocke-Ahmadinejad N, Kollmar M, Schulze-Lefert P, Panstruga R:

Barley Ror1 encodes a class XI myosin required for mlo-based broad-spectrum resistance to the fungal powdery mildew pathogen. Plant J. 112 (2022) 84-103. https://dx.doi.org/10.1111/tpj.15930

Afshar M, Møllebjerg A, Minero G A, Hollensteiner J, Poehlein A, Himmelbach A, Lange J, Meyer R L, Brüggemann H:

Biofilm formation and inflammatory potential of Staphylococcus saccharolyticus: A possible cause of orthopedic implant-associated infections. Front. Microbiol. 13 (2022) 1070201. https://dx.doi.org/10.3389/fmicb.2022.1070201

Aiyesa L V:

Unravelling the genetics of pod stringiness and agronomic traits of common bean (Phaseolus vulgaris L.) using genome-wide association studies and genotyping-by-sequencing. (Master Thesis) Göttingen, Georg-August-Universität Göttingen, Fakultät für Agrarwissenschaften (2022) 55 pp.

Avni R, Lux T, Minz-Dub A, Millet E, Sela H, Distelfeld A, Deek J, Yu G, Steuernagel B, Pozniak C, Ens J, Gundlach H, Mayer K F X, Himmelbach A, Stein N, Mascher M, Spannagl M, Wulff B B H, Sharon A:

Genome sequences of three Aegilops species of the section Sitopsis reveal phylogenetic relationships and provide resources for wheat improvement. Plant J. 110 (2022) 179-192. https://dx.doi.org/10.1111/tpj.15664

Boudichevskaia A, Fiebig A, Kumke K, Himmelbach A, Houben A:

Rye B chromosomes differently influence the expression of A chromosome-encoded genes depending on the host species. Chromosome Res. 30 (2022) 335-349. https://dx.doi.org/10.1007/s10577-022-09704-6

Chang C-W, Fridman E, Mascher M, Himmelbach A, Schmid K:

Physical geography, isolation by distance and environmental variables shape genomic variation of wild barley (Hordeum vulgare L. ssp. spontaneum) in the Southern Levant. Heredity 128 (2022) 107–119. https://dx.doi.org/10.1038/s41437-021-00494-x

Coulter M, Entizne J C, Guo W, Bayer M, Wonneberger R, Milne L, Schreiber M, Haaning A, Muehlbauer G, McCallum N, Fuller J, Simpson C, Stein N, Brown J W S, Waugh R, Zhang R:

BaRTv2: A highly resolved barley reference transcriptome for accurate transcript-specific RNA-seq quantification. Plant J. 111 (2022) 1183-1202. https://dx.doi.org/10.1111/tpj.15871

Dinh H X, Singh D, Gomez de la Cruz D, Hensel G, Kumlehn J, Mascher M, Stein N, Perovic D, Ayliffe M, Moscou M J, Park R F, Pourkheirandish M:

The barley leaf rust resistance gene Rph3 encodes a predicted membrane protein and is induced upon infection by avirulent pathotypes of Puccinia hordei. Nat. Commun. 13 (2022) 2386. https://dx.doi.org/10.1038/s41467-022-29840-1

Fusi R, Rosignoli S, Lou H, Sangiorgi G, Bovina R, Pattem J K, Borkar A N, Lombardi M, Forestan C, Milner S G, Davis J L, Lale A, Kirschner G K, Swarup R, Tassinari A, Pandey B K, York L M, Atkinson B S, Sturrock C J, Mooney S J, Hochholdinger F, Tucker M R, Himmelbach A, Stein N, Mascher M, Nagel K A, de Gara L, Simmonds J, Uauy C, Tuberosa R, Lynch J P, Yakubov G E, Bennett M J, Bhosale R, Salvi S:

Root angle is controlled by EGT1 in cereal crops employing a novel anti-gravitropic mechanism. Proc. Natl. Acad. Sci. U.S.A. 119 (2022) e2201350119. https://dx.doi.org/10.1073/pnas.2201350119

Gudzuhn M, Alio I, Moll R, de Vries J, Boehlich J, Assmann M, Janneschutz J, Schützenmeister N, Himmelbach A, Poehlein A, Daniel R, Streit W R:

Molecular insight into gene response of diorcinol- and rubrolide-treated biofilms of the emerging pathogen Stenotrophomonas maltophilia. Microbiol. Spectr. 10 (2022) e0258221. https://dx.doi.org/10.1128/spectrum.02582-21

Guo Y, Himmelbach A, Weiss E, Stein N, Mascher M:

Six-rowed wild-growing barleys are hybrids of diverse origins. Plant J. 111 (2022) 849-858. https://dx.doi.org/10.1111/tpj.15861

Hashemi-Petroudi S H, Arab M, Dolatabadi B, Kuo Y-T, Baez M A, Himmelbach A, Nematzadeh G, Maibody S A M M, Schmutzer T, Melzer M, Altmann T, Kuhlmann M:

Initial description of the genome of Aeluropus littoralis, a halophile grass. Front. Plant Sci. 13 (2022) 906462. https://dx.doi.org/10.3389/fpls.2022.906462

Hinterberger V, Douchkov D, Lück S, Kale S, Mascher M, Stein N, Reif J C, Schulthess A W:

Mining for new sources of resistance to powdery mildew in genetic resources of winter wheat. Front. Plant Sci. 13 (2022) 836723. https://dx.doi.org/10.3389/fpls.2022.836723

Huu C N, Plaschil S, Himmelbach A, Kappel C, Lenhard M:

Female self-incompatibility type in heterostylous Primula is determined by the brassinosteroid-inactivating cytochrome P450 CYP734A50. Curr. Biol. 32 (2022) 671-676. https://dx.doi.org/10.1016/j.cub.2021.11.046

Jiang C, Lei M, Guo Y, Gao G, Shi L, Jin Y, Cai Y, Himmelbach A, Zhou S, He Q, Yao X, Kan J, Haberer G, Duan F, Li L, Liu J, Zhang J, Spannagl M, Liu C, Stein N, Feng Z, Mascher M, Yang P:

A reference-guided TILLING by amplicon-seq platform supports forward and reverse genetics in barley. Plant Commun. 3 (2022) 100317. https://doi.org/10.1016/j.xplc.2022.100317

Kale S M, Schulthess A W, Padmarasu S, Boeven P H G, Schacht J, Himmelbach A, Steuernagel B, Wulff B B H, Reif J C, Stein N, Mascher M:

A catalogue of resistance gene homologs and a chromosome-scale reference sequence support resistance gene mapping in winter wheat. Plant Biotechnol. J. 20 (2022) 1730-1742. https://dx.doi.org/10.1111/pbi.13843

Kamal N, Tsardakas Renhuldt N, Bentzer J, Gundlach H, Haberer G, Juhász A, Lux T, Bose U, Tye-Din J A, Lang D, van Gessel N, Reski R, Fu Y-B, Spégel P, Ceplitis A, Himmelbach A, Waters A J, Bekele W A, Colgrave M L, Hansson M, Stein N, Mayer K F X, Jellen E N, Maughan P J, Tinker N A, Mascher M, Olsson O, Spannagl M, Sirijovski N:

The mosaic oat genome gives insights into a uniquely healthy cereal crop. Nature 606 (2022) 113-119. https://dx.doi.org/10.1038/s41586-022-04732-y

Keilwagen J, Lehnert H, Berner T, Badaeva E, Himmelbach A, Börner A, Kilian B:

Detecting major introgressions in wheat and their putative origins using coverage analysis. Sci. Rep. 12 (2022) 1908. https://dx.doi.org/10.1038/s41598-022-05865-w

Koppolu R, Jiang G, Milner S G, Muqaddasi Q H, Rutten T, Himmelbach A, Guo Y, Stein N, Mascher M, Schnurbusch T:

The barley mutant multiflorus2.b reveals quantitative genetic variation for new spikelet architecture. Theor. Appl. Genet. 135 (2022) 571–590. https://dx.doi.org/10.1007/s00122-021-03986-w

Lehnert H, Berner T, Lang D, Beier S, Stein N, Himmelbach A, Kilian B, Keilwagen J:

Insights into breeding history, hotspot regions of selection and untapped allelic diversity for bread wheat breeding. Plant J. 112 (2022) 897-918. https://dx.doi.org/10.1111/tpj.15952

Nagireddy S R:

Genetic mapping of a yellow-stripe variegation leaf phenotype identified in an EMS-induced mutant of the winter barley variety Igri. (Master Thesis) Göttingen, Georg-August-Universität Göttingen, Fakultät für Agrarwissenschaften (2022) 49 pp.

Navrátilová P, Toegelová H, Tulpová Z, Kuo Y-T, Stein N, Doležel J, Houben A, Šimková H, Mascher M:

Prospects of telomere-to-telomere assembly in barley: analysis of sequence gaps in the MorexV3 reference genome. Plant Biotechnol. J. 20 (2022) 1373-1386. https://dx.doi.org/10.1111/pbi.13816

Osatohanmwen B E:

Multi-omics analysis of barley HEB-25 population - Linking genotype with phenotype using genomic networking. (Master Thesis) Göttingen, Georg-August-Universität Göttingen, Fakultät für Agrarwissenschaften (2022) 59 pp.

Rabanus-Wallace M T, Stein N:

Why 2022 is a revolutionary year for potato genomics. Mol. Plant 15 (2022) 1257-1259. https://dx.doi.org/10.1016/j.molp.2022.06.015

Sakkour A, Mascher M, Himmelbach A, Haberer G, Lux T, Spannagl M, Stein N, Kawamoto S, Sato K:

Chromosome-scale assembly of barley Cv. Haruna Nijo as a resource for barley genetics. DNA Res. 29 (2022) dsac001. https://dx.doi.org/10.1093/dnares/dsac001

Schreiber M, Gao Y, Koch N, Fuchs J, Heckmann S, Himmelbach A, Börner A, Özkan H, Maurer A, Stein N, Mascher M, Dreissig S:

Recombination landscape divergence between populations is marked by larger low-recombining regions in domesticated rye. Mol. Biol. Evol. 39 (2022) msac131. https://dx.doi.org/10.1093/molbev/msac131

Schulthess A W, Kale S M, Liu F, Zhao Y, Philipp N, Rembe M, Jiang Y, Beukert U, Serfling A, Himmelbach A, Fuchs J, Oppermann M, Weise S, Boeven P H G, Schacht J, Longin C F H, Kollers S, Pfeiffer N, Korzun V, Lange M, Scholz U, Stein N, Mascher M, Reif J C:

Genomics-informed prebreeding unlocks the diversity in genebanks for wheat improvement. Nat. Genet. 54 (2022) 1544-1552. https://dx.doi.org/10.1038/s41588-022-01189-7

Schulthess A W, Kale S M, Zhao Y, Gogna A, Rembe M, Philipp N, Liu F, Beukert U, Serfling A, Himmelbach A, Oppermann M, Weise S, Boeven P H G, Schacht J, Longin C F H, Kollers S, Pfeiffer N, Korzun V, Fiebig A, Schüler D, Lange M, Scholz U, Stein N, Mascher M, Reif J C:

Large-scale genotyping and phenotyping of a worldwide winter wheat genebank for its use in pre-breeding. Sci. Data 9 (2022) 784. https://dx.doi.org/10.1038/s41597-022-01891-5

Téran M:

Accessing maize pangenome graphs. (Master Thesis) Göttingen, Georg-August-Universität Göttingen, Fakultät für Agrarwissenschaften (2022) 48 pp.

Wicker T, Stritt C, Sotiropoulos A G, Poretti M, Pozniak C, Walkowiak S, Gundlach H, Stein N:

Transposable element populations shed light on the evolutionary history of wheat and the complex co-evolution of autonomous and non-autonomous retrotransposons. Adv. Genet. 3 (2022) 2100022. https://dx.doi.org/10.1002/ggn2.202100022

Wilde P, Korzun V, Menzel J, Zhou R, Stein N, Hackauf B:

Restorer Pflanze. (Industrieanmeldung durch KWS SAAT SE & CO KGAA) Offenlegung: 29.06.2017, IPK-Nr.: 2014/04, WO2017109012A1; Erteilung in EP als EP3393234B1 am 15.12.2021 und in USA als US11312967B2 am 26.04.2022. (2022).

Yu G, Matny O, Champouret N, Steuernagel B, Moscou M J, Hernández-Pinzón I, Green P, Hayta S, Smedley M, Harwood W, Kangara N, Yue Y, Gardener C, Banfield M J, Olivera P D, Welchin C, Simmons J, Millet E, Minz-Dub A, Ronen M, Avni R, Sharon A, Patpour M, Justesen A F, Jayakodi M, Himmelbach A, Stein N, Wu S, Poland J, Ens J, Pozniak C, Karafiátová M, Molnár I, Doležel J, Ward E R, Reuber T L, Jones J D G, Mascher M, Steffenson B J, Wulff B B H:

Aegilops sharonensis genome-assisted identification of stem rust resistance gene Sr62. Nat. Commun. 13 (2022) 1607. https://dx.doi.org/10.1038/s41467-022-29132-8


Barchi L, Rabanus-Wallace M T, Prohens J, Toppino L, Padmarasu S, Portis E, Rotino G L, Stein N, Lanteri S, Giuliano G:

Improved genome assembly and pan-genome provide key insights on eggplant domestication and breeding. Plant J. 107 (2021) 579-596. https://dx.doi.org/10.1111/tpj.15313

Gao L, Koo D-H, Juliana P, Rife T, Singh D, Lemes da Silva C, Lux T, Dorn K M, Clinesmith M, Silva P, Wang X, Spannagl M, Monat C, Friebe B, Steuernagel B, Muehlbauer G J, Walkowiak S, Pozniak C, Singh R, Stein N, Mascher M, Fritz A, Poland J:

The Aegilops ventricosa 2NvS segment in bread wheat: cytology, genomics and breeding. Theor. Appl. Genet. 134 (2021) 529–542. https://dx.doi.org/10.1007/s00122-020-03712-y

Gonzalez M Y, Zhao Y, Jiang Y, Stein N, Habekuss A, Reif J C, Schulthess A W:

Genomic prediction models trained with historical records enable populating the German ex situ genebank bio-digital resource center of barley (Hordeum sp.) with information on resistances to soilborne barley mosaic viruses. Theor. Appl. Genet. 134 (2021) 2181–2196. https://dx.doi.org/10.1007/s00122-021-03815-0

Hackauf B, Rabanus-Wallace M T, Korzun V:

Bridging the genotype–phenotype gap for precision breeding in rye. In: Rabanus-Wallace M T, Stein N (Eds.): The rye genome. (Series: Compendium of plant genomes) Cham: Springer (2021) ISBN 978-3-030-83383-1, 135-180. https://dx.doi.org/10.1007/978-3-030-83383-1_9

Hoencamp C, Dudchenko O, Elbatsh A M O, Brahmachari S, Raaijmakers J A, van Schaik T, Sedeño Cacciatore Á, Contessoto V G, van Heesbeen R G H P, van den Broek B, Mhaskar A N, Teunissen H, St Hilaire B G, Weisz D, Omer A D, Pham M, Colaric Z, Yang Z, Rao S S P, Mitra N, Lui C, Yao W, Khan R, Moroz L L, Kohn A, St. Leger J, Mena A, Holcroft K, Gambetta M C, Lim F, Farley E, Stein N, Haddad A, Chauss D, Mutlu A S, Wang M C, Young N D, Hildebrandt E, Cheng H H, Knight C J, Burnham T L U, Hovel K A, Beel A J, Mattei P-J, Kornberg R D, Warren W C, Cary G, Gómez-Skarmeta J L, Hinman V, Lindblad-Toh K, Di Palma F, Maeshima K, Multani A S, Pathak S, Nel-Themaat L, Behringer R R, Kaur P, Medema R H, van Steensel B, de Wit E, Onuchic J N, Di Pierro M, Lieberman Aiden E, Rowland B D:

3D genomics across the tree of life reveals condensin II as a determinant of architecture type. Science 372 (2021) 984-989. https://dx.doi.org/10.1126/science.abe2218

Jayakodi M, Schreiber M, Stein N, Mascher M:

Building pan-genome infrastructures for crop plants and their use in association genetics. DNA Res. 28 (2021) dsaa030. https://dx.doi.org/10.1093/dnares/dsaa030

Li G, Wang L, Yang J, He H, Jin H, Li X, Ren T, Ren Z, Li F, Han X, Zhao X, Dong L, Li Y, Song Z, Yan Z, Zheng N, Shi C, Wang Z, Yang S, Xiong Z, Zhang M, Sun G, Zheng X, Gou M, Ji C, Du J, Zheng H, Doležel J, Deng X W, Stein N, Yang Q, Zhang K, Wang D:

A high-quality genome assembly highlights rye genomic characteristics and agronomically important genes. Nat. Genet. 53 (2021) 574-584. https://dx.doi.org/10.1038/s41588-021-00808-z

Li M, Guo G, Pidon H, Melzer M, Prina A R, Börner T, Stein N:

ATP-dependent Clp protease subunit C1, HvClpC1, is a strong candidate gene for barley variegation mutant luteostrians as revealed by genetic mapping and genomic re-sequencing. Front. Plant Sci. 12 (2021) 664085. https://dx.doi.org/10.3389/fpls.2021.664085

Li M, Hensel G, Melzer M, Junker A, Tschiersch H, Ruwe H, Arend D, Kumlehn J, Börner T, Stein N:

Mutation of the ALBOSTRIANS ohnologous gene HvCMF3 impairs chloroplast development and thylakoid architecture in barley. Front. Plant Sci. 12 (2021) 732608. https://dx.doi.org/10.3389/fpls.2021.732608

Li M, Ruwe H, Melzer M, Junker A, Hensel G, Tschiersch H, Schwenkert S, Chamas S, Schmitz-Linneweber C, Börner T, Stein N:

The Arabidopsis AAC proteins CIL and CIA2 are sub-functionalized paralogs involved in chloroplast development. Front. Plant Sci. 12 (2021) 681375. https://dx.doi.org/10.3389/fpls.2021.681375

Mascher M, Jayakodi M, Stein N:

The reinvention of potato. Cell Res. 31 (2021) 1144–1145. https://dx.doi.org/10.1038/s41422-021-00542-5

Mascher M, Wicker T, Jenkins J, Plott C, Lux T, Koh C S, Ens J, Gundlach H, Boston L B, Tulpová Z, Holden S, Hernández-Pinzón I, Scholz U, Mayer K F X, Spannagl M, Pozniak C J, Sharpe A G, Šimková H, Moscou M J, Grimwood J, Schmutz J, Stein N:

Long-read sequence assembly: a technical evaluation in barley. Plant Cell 33 (2021) 1888-1906. https://dx.doi.org/10.1093/plcell/koab077

Otto L-G, Sonnenschein M, Faehnrich B, Franz C, Ruzicka J, Novak J, Fraust B, He S, Himmelbach A, Plocharski B, Bubner U, Albrecht S, Plescher A, Sharbel T:

Entwicklung einer sterilen Kamillensorte zur Erweiterung der Anbaufläche in Deutschland. J. Kulturpfl. 73 (2021) 173-174.

Pidon H, Wendler N, Habekubeta A, Maasberg A, Ruge-Wehling B, Perovic D, Ordon F, Stein N:

High-resolution mapping of Rym14Hb, a wild relative resistance gene to barley yellow mosaic disease. Theor. Appl. Genet. 134 (2021) 823-833. https://dx.doi.org/10.1007/s00122-020-03733-7

Rabanus-Wallace M T, Hackauf B, Mascher M, Lux T, Wicker T, Gundlach H, Baez M, Houben A, Mayer K F X, Guo L, Poland J, Pozniak C J, Walkowiak S, Melonek J, Praz C R, Schreiber M, Budak H, Heuberger M, Steuernagel B, Wulff B, Börner A, Byrns B, Čížková J, Fowler D B, Fritz A, Himmelbach A, Kaithakottil G, Keilwagen J, Keller B, Konkin D, Larsen J, Li Q, Myśków B, Padmarasu S, Rawat N, Sesiz U, Biyiklioglu-Kaya S, Sharpe A, Šimková H, Small I, Swarbreck D, Toegelová H, Tsvetkova N, Voylokov A V, Vrána J, Bauer E, Bolibok-Bragoszewska H, Doležel J, Hall A, Jia J, Korzun V, Laroche A, Ma X-F, Ordon F, Özkan H, Rakoczy-Trojanowska M, Scholz U, Schulman A H, Siekmann D, Stojalowski S, Tiwari V K, Spannagl M, Stein N:

Chromosome-scale genome assembly provides insights into rye biology, evolution and agronomic potential. Nat. Genet. 53 (2021) 564-573. https://dx.doi.org/10.1038/s41588-021-00807-0

Rabanus-Wallace M T, Stein N (Eds.):

The rye genome. (Series: Compendium of plant genomes) : Springer Nature Switzerland AG (2021) ISBN 978-3-030-83383-1, https://dx.doi.org/10.1007/978-3-030-83383-1

Rabanus-Wallace M T, Wang D, Yang J, Li G, Stein N:

Assembling the rye genome. In: Rabanus-Wallace M T, Stein N (Eds.): The rye genome. (Series: Compendium of plant genomes) Cham: Springer (2021) ISBN 978-3-030-83383-1, 101-116. https://dx.doi.org/10.1007/978-3-030-83383-1_7

Sato K, Mascher M, Himmelbach A, Haberer G, Spannagl M, Stein N:

Chromosome-scale assembly of wild barley accession ‘OUH602’. G3 Genes Genom. Genet. 11 (2021) jkab244. https://doi.org/10.1093/g3journal/jkab244

Shimizu K K, Copetti D, Okada M, Wicker T, Tameshige T, Hatakeyama M, Shimizu-Inatsugi R, Aquino C, Nishimura K, Kobayashi F, Murata K, Kuo T, Delorean E, Poland J, Haberer G, Spannagl M, Mayer K F X, Gutierrez-Gonzalez J, Muehlbauer G J, Monat C, Himmelbach A, Padmarasu S, Mascher M, Walkowiak S, Nakazaki T, Ban T, Kawaura K, Tsuji H, Pozniak C, Stein N, Sese J, Nasuda S, Handa H:

De novo genome assembly of the Japanese wheat cultivar Norin 61 highlights functional variation in flowering time and Fusarium resistance genes in East Asian genotypes. Plant Cell Physiol. 62 (2021) 8-27. https://dx.doi.org/10.1093/pcp/pcaa152

Thiel J, Koppolu R, Trautewig C, Hertig C, Kale S M, Erbe S, Mascher M, Himmelbach A, Rutten T, Esteban E, Pasha A, Kumlehn J, Provart N J, Vanderauwera S, Frohberg C, Schnurbusch T:

Transcriptional landscapes of floral meristems in barley. Sci. Adv. 7 (2021) eabf0832. https://dx.doi.org/10.1126/sciadv.abf0832

Tripodi P, Rabanus-Wallace M T, Barchi L, Kale S, Esposito S, Acquadro A, Schafleitner R, van Zonneveld M, Prohens J, Diez M J, Börner A, Salinier J, Caromel B, Bovy A, Boyaci F, Pasev G, Brandt R, Himmelbach A, Portis E, Finkers R, Lanteri S, Paran I, Lefebvre V, Giuliano G, Stein N:

Global range expansion history of pepper (Capsicum spp.) revealed by over 10,000 genebank accessions. Proc. Natl. Acad. Sci. U.S.A. 118 (2021) e2104315118. https://dx.doi.org/10.1073/pnas.2104315118

Wolde G M, Schreiber M, Trautewig C, Himmelbach A, Sakuma S, Mascher M, Schnurbusch T:

Genome-wide identification of loci modifying spike-branching in tetraploid wheat. Theor. Appl. Genet. 134 (2021) 1925–1943. https://dx.doi.org/10.1007/s00122-020-03743-5


Bog M, Xu S, Himmelbach A, Brandt R, Wagner F, Appenroth K J, Sree K S:

Genotyping-by-sequencing for species delimitation in Lemna section Uninerves Hegelm. (Lemnaceae). In: Cao X H, Fourounjian P, Wang W (Eds.): The duckweed genomes. (Series: Compendium of plant genomes) Cham: Springer (2020) 115-123. https://doi.org/10.1007/978-3-030-11045-1_11

Chu J, Zhao Y, Beier S, Schulthess A W, Stein N, Philipp N, Röder M S, Reif J C:

Suitability of single-nucleotide polymorphism arrays versus genotyping-by-sequencing for genebank genomics in wheat. Front. Plant Sci. 11 (2020) 42. https://dx.doi.org/10.3389/fpls.2020.00042

Dreissig S, Fuchs J, Himmelbach A, Mascher M, Houben A:

Quantification of recombination rate and segregation distortion by genotyping and sequencing of single pollen nuclei. In: Pradillo M, Heckmann S (Eds.): Plant Meiosis: methods and protocols. (Series: Methods in molecular biology, Vol. 2061) New York, NY: Humana Press (2020) 978-1-4939-9817-3, 281-300. https://dx.doi.org/10.1007/978-1-4939-9818-0_20

Haas M, Himmelbach A, Mascher M:

The contribution of cis- and trans-acting variants to gene regulation in wild and domesticated barley under cold stress and control conditions. J. Exp. Bot. 71 (2020) 2573-2584. https://dx.doi.org/10.1093/jxb/eraa036

Hoseinzadeh P, Ruge-Wehling B, Schweizer P, Stein N, Pidon H:

High resolution mapping of a Hordeum bulbosum-derived powdery mildew resistance locus in barley using distinct homologous introgression lines. Front. Plant Sci. 11 (2020) 225. https://dx.doi.org/10.3389/fpls.2020.00225

Jayakodi M, Padmarasu S, Haberer G, Bonthala V S, Gundlach H, Monat C, Lux T, Kamal N, Lang D, Himmelbach A, Ens J, Zhang X Q, Angessa T T, Zhou G, Tan C, Hill C, Wang P, Schreiber M, Boston L B, Plott C, Jenkins J, Guo Y, Fiebig A, Budak H, Xu D, Zhang J, Wang C, Grimwood J, Schmutz J, Guo G, Zhang G, Mochida K, Hirayama T, Sato K, Chalmers K J, Langridge P, Waugh R, Pozniak C J, Scholz U, Mayer K F X, Spannagl M, Li C, Mascher M, Stein N:

The barley pan-genome reveals the hidden legacy of mutation breeding. Nature 588 (2020) 284-289. https://dx.doi.org/10.1038/s41586-020-2947-8

König P, Beier S, Basterrechea M, Schüler D, Arend D, Mascher M, Stein N, Scholz U, Lange M:

BRIDGE – a visual analytics web tool for barley genebank genomics. Front. Plant Sci. 11 (2020) 701. https://dx.doi.org/10.3389/fpls.2020.00701

Liu F, Zhao Y, Beier S, Jiang Y, Thorwarth P, Longin C F H, Ganal M, Himmelbach A, Reif J C, Schulthess A W:

Exome association analysis sheds light onto leaf rust (Puccinia triticina) resistance genes currently used in wheat breeding (Triticum aestivum L.). Plant Biotechnol. J. 18 (2020) 1396-1408. https://dx.doi.org/10.1111/pbi.13303

McCouch S, Navabi K, Abberton M, Anglin N L, Barbieri R L, Baum M, Bett K, Booker H, Brown G L, Bryan G J, Cattivelli L, Charest D, Eversole K, Freitas M, Ghamkhar K, Grattapaglia D, Henry R, Valadares Inglis M C, Islam T, Kehel Z, Kersey P J, Kresovich S, Marden E, Mayes S, Ndjiondjop M N, Nguyen H T, Paiva S, Papa R, Phillips P W B, Rasheed A, Richards C, Rouard M, Amstalden Sampaio M J, Scholz U, Shaw P D, Sherman B, Staton S E, Stein N, Svensson J, Tester M, Montenegro Valls J F, Varshney R, Visscher S, von Wettberg E, Waugh R, Wenzl P W B, Rieseberg L H:

Mobilizing crop biodiversity. Mol. Plant 13 (2020) 1341-1344. https://dx.doi.org/10.1016/j.molp.2020.08.011

Pidon H, Stein N:

Mapping and exploiting the barley genome – techniques for mapping genes and relating them to desirable traits. In: Fox G, Li C (Eds.): Achieving sustainable cultivation of barley. (Burleigh Dodds Series in Agricultural Science, Vol. 74) Cambridge, UK: Burleigh Dodds (2020) ISBN 978-1-78676-308-2, 123-158.

Poursarebani N, Trautewig C, Melzer M, Nussbaumer T, Lundqvist U, Rutten T, Schmutzer T, Brandt R, Himmelbach A, Altschmied L, Koppolu R, Youssef H M, Sibout R, Dalmais M, Bendahmane A, Stein N, Xin Z, Schnurbusch T:

COMPOSITUM 1 contributes to the architectural simplification of barley inflorescence via meristem identity signals. Nat. Commun. 11 (2020) 5138. https://dx.doi.org/10.1038/s41467-020-18890-y

Reddy Kunam J:

Genome-wide association studies of different spike traits and grain traits in a population of European two-rowed spring barleys. (Master Thesis) Göttingen, Georg-August-Universität (2020) 76 pp.

Ruban A, Schmutzer T, Wu D D, Fuchs J, Boudichevskaia A, Rubtsova M, Pistrick K, Melzer M, Himmelbach A, Schubert V, Scholz U, Houben A:

Supernumerary B chromosomes of Aegilops speltoides undergo precise elimination in roots early in embryo development. Nat. Commun. 11 (2020) 2764. https://dx.doi.org/10.1038/s41467-020-16594-x

Schreiber M, Mascher M, Wright J, Padmarasu S, Himmelbach A, Heavens D, Milne L, Clavijo B J, Stein N, Waugh R:

A genome assembly of the barley transformation reference cultivar Golden Promise. G3-Genes Genom. Genet. 10 (2020) 1823-1827. https://dx.doi.org/10.1534/g3.119.401010

Stein N, Zhou R:

Wiederherstellungsgene zytoplasmatisch bedingter männlicher Sterilität in Weizen, molekulare Marker und deren Verwendung. (Industrieanmeldung), Veröffentlichung: 07.10.2020, IPK-Nr. 2018/01. EP3718397A1. (2020).

Tikhenko N, Alqudah A M, Borisjuk L, Ortleb S, Rutten T, Wu D D, Nagel M, Himmelbach A, Mascher M, Röder M, Ganal M, Sehmisch S, Houben A, Börner A:

DEFECTIVE ENDOSPERM-D1 (Dee-D1) is crucial for endosperm development in hexaploid wheat. Commun. Biol. 3 (2020) 791. https://doi.org/10.1038/s42003-020-01509-9

Walkowiak S, Gao L, Monat C, Haberer G, Kassa M T, Brinton J, Ramirez-Gonzalez R H, Kolodziej M C, Delorean E, Thambugala D, Klymiuk V, Byrns B, Gundlach H, Bandi V, Siri J N, Nilsen K, Aquino C, Himmelbach A, Copetti D, Ban T, Venturini L, Bevan M, Clavijo B, Koo D H, Ens J, Wiebe K, NDiaye A, Fritz A K, Gutwin C, Fiebig A, Fosker C, Fu B X, Accinelli G G, Gardner K A, Fradgley N, Gutierrez-Gonzalez J, Halstead-Nussloch G, Hatakeyama M, Koh C S, Deek J, Costamagna A C, Fobert P, Heavens D, Kanamori H, Kawaura K, Kobayashi F, Krasileva K, Kuo T, McKenzie N, Murata K, Nabeka Y, Paape T, Padmarasu S, Percival-Alwyn L, Kagale S, Scholz U, Sese J, Juliana P, Singh R, Shimizu-Inatsugi R, Swarbreck D, Cockram J, Budak H, Tameshige T, Tanaka T, Tsuji H, Wright J, Wu J, Steuernagel B, Small I, Cloutier S, Keeble-Gagnere G, Muehlbauer G, Tibbets J, Nasuda S, Melonek J, Hucl P J, Sharpe A G, Clark M, Legg E, Bharti A, Langridge P, Hall A, Uauy C, Mascher M, Krattinger S G, Handa H, Shimizu K K, Distelfeld A, Chalmers K, Keller B, Mayer K F X, Poland J, Stein N, McCartney C A, Spannagl M, Wicker T, Pozniak C J:

Multiple wheat genomes reveal global variation in modern breeding. Nature 588 (2020) 277-283. https://dx.doi.org/10.1038/s41586-020-2961-x

Youssef H M, Allam M, Boussora F, Himmelbach A, Milner S G, Mascher M, Schnurbusch T:

Dissecting the genetic basis of lateral and central spikelet development and grain traits in intermedium-spike barley (Hordeum vulgare convar. intermedium). Plants 9 (2020) 1655. https://dx.doi.org/10.3390/plants9121655


Agarwal G, Clevenger J, Kale S M, Wang H, Pandey M K, Choudhary D, Yuan M, Wang X, Culbreath A K, Holbrook C C, Liu X, Varshney R K, Guo B:

A recombination bin-map identified a major QTL for resistance to Tomato Spotted Wilt Virus in peanut (Arachis hypogaea). Sci. Rep. 9 (2019) 18246. https://dx.doi.org/10.1038/s41598-019-54747-1

Awais M:

Genetic mapping of a locus on chromosome 7H controlling barb formation on barley awns. (Master Thesis) Göttingen, Georg-August-Universität (2019) 35 pp.

Breen J, Rabanus-Wallace M T:

New tricks for old wheat. Nat. Plants 5 (2019) 1108-1109. https://dx.doi.org/10.1038/s41477-019-0528-3

Bustos-Korts D, Dawson I K, Russell J, Tondelli A, Guerra D, Ferrandi C, Strozzi F, Nicolazzi E L, Molnar-Lang M, Ozkan H, Megyeri M, Miko P, Cakir E, Yakisir E, Trabanco N, Delbono S, Kyriakidis S, Booth A, Cammarano D, Mascher M, Werner P, Cattivelli L, Rossini L, Stein N, Kilian B, Waugh R, van Eeuwijk F A:

Exome sequences and multi-environment field trials elucidate the genetic basis of adaptation in barley. Plant J. 99 (2019) 1172-1191. https://dx.doi.org/10.1111/tpj.14414

Darrier B, Russell J, Milner S G, Hedley P E, Shaw P D, Macaulay M, Ramsay L D, Halpin C, Mascher M, Fleury D L, Langridge P, Stein N, Waugh R:

A comparison of mainstream genotyping platforms for the evaluation and use of barley genetic resources. Front. Plant Sci. 10 (2019) 544. https://dx.doi.org/10.3389/fpls.2019.00544

Hoseinzadeh H, Zhou R, Mascher M, Himmelbach A, Niks R E, Schweizer P, Stein N:

High resolution genetic and physical mapping of a major powdery mildew resistance locus in barley. Front. Plant Sci. 10 (2019) 146. https://dx.doi.org/10.3389/fpls.2019.00146

Jain A, Roorkiwal M, Kale S, Garg V, Yadala R, Varshney R K:

InDel markers: An extended marker resource for molecular breeding in chickpea. PLoS One 14 (2019) e0213999. https://dx.doi.org/10.1371/journal.pone.0213999

Jost M, Szurman-Zubrzycka M, Gajek K, Szarejko I, Stein N:

TILLING in barley. In: Harwood W A (Ed.): Barley: methods and protocols. (Series: Methods in molecular biology, Vol. 1900) New York, NY: Humana Press (2019) 978-1-4939-8944-7, 73-94. https://dx.doi.org/10.1007/978-1-4939-8944-7_6

Keilwagen J, Lehnert H, Berner T, Beier S, Scholz U, Himmelbach A, Stein N, Badaeva E D, Lang D, Kilian B, Hackauf B, Perovic D:

Detecting large chromosomal modifications using short read data from genotyping-by-sequencing. Front. Plant Sci. 10 (2019) 1133. https://dx.doi.org/10.3389/fpls.2019.01133

Li M, Hensel G, Mascher M, Melzer M, Budhagatapalli N, Rutten T, Himmelbach A, Beier S, Korzun V, Kumlehn J, Boerner T, Stein N:

Leaf variegation and impaired chloroplast development caused by a truncated CCT domain gene in albostrians barley. Plant Cell 31 (2019) 1430-1445. https://dx.doi.org/10.1105/tpc.19.00132

Maccaferri M, Harris N S, Twardziok S O, Pasam R K, Gundlach H, Spannagl M, Ormanbekova D, Lux T, Prade V M, Milner S G, Himmelbach A, Mascher M, Bagnaresi P, Faccioli P, Cozzi P, Lauria M, Lazzari B, Stella A, Manconi A, Gnocchi M, Moscatelli M, Avni R, Deek J, Biyiklioglu S, Frascaroli E, Corneti S, Salvi S, Sonnante G, Desiderio F, Mare C, Crosatti C, Mica E, Ozkan H, Kilian B, De Vita P, Marone D, Joukhadar R, Mazzucotelli E, Nigro D, Gadaleta A, Chao S, Faris J D, Melo A T O, Pumphrey M, Pecchioni N, Milanesi L, Wiebe K, Ens J, MacLachlan R P, Clarke J M, Sharpe A G, Koh C S, Liang K Y H, Taylor G J, Knox R, Budak H, Mastrangelo A M, Xu S S, Stein N, Hale I, Distelfeld A, Hayden M J, Tuberosa R, Walkowiak S, Mayer K F X, Ceriotti A, Pozniak C J, Cattivelli L:

Durum wheat genome highlights past domestication signatures and future improvement targets. Nat. Genet. 51 (2019) 885-895. https://dx.doi.org/10.1038/s41588-019-0381-3

Mascher M, Schreiber M, Scholz U, Graner A, Reif J C, Stein N:

Genebank genomics bridges the gap between the conservation of crop diversity and plant breeding. Nat. Genet. 51 (2019) 1076-1081. https://dx.doi.org/10.1038/s41588-019-0443-6

Melonek J, Zhou R, Bayer P E, Edwards D, Stein N, Small I:

High intraspecific diversity of Restorer-of-fertility-like genes in barley. Plant J. 97 (2019) 281-295. https://dx.doi.org/10.1111/tpj.14115

Milner S G, Jost M, Taketa S, Mazón E R, Himmelbach A, Oppermann M, Weise S, Knüpffer H, Basterrechea M, König P, Schüler D, Sharma R, Pasam R K, Rutten T, Guo G, Xu D, Zhang J, Herren G, Müller T, Krattinger S G, Keller B, Jiang Y, González M Y, Zhao Y, Habekuß A, Färber S, Ordon F, Lange M, Börner A, Graner A, Reif J C, Scholz U, Mascher M, Stein N:

Genebank genomics highlights the diversity of a global barley collection. Nat. Genet. 51 (2019) 319-326. https://doi.org/10.1038/s41588-018-0266-x

Monat C, Padmarasu S, Lux T, Wicker T, Gundlach H, Himmelbach A, Ens J, Li C, Muehlbauer G J, Schulman A H, Waugh R, Braumann I, Pozniak C, Scholz U, Mayer K F X, Spannagl M, Stein N, Mascher M:

TRITEX: chromosome-scale sequence assembly of Triticeae genomes with open-source tools. Genome Biol. 20 (2019) 284. https://dx.doi.org/10.1186/s13059-019-1899-5

Monat C, Schreiber M, Stein N, Mascher M:

Prospects of pan-genomics in barley. Theor. Appl. Genet. 132 (2019) 785–796. https://dx.doi.org/10.1007/s00122-018-3234-z

Padmarasu S, Himmelbach A, Mascher M, Stein N:

In situ Hi-C for plants: an improved method to detect long-range chromatin interactions. In: Chekanova J, Wang H-L (Eds.): Plant long non-coding RNAs: methods and protocols. (Series: Methods in molecular biology, Vol. 1933) New York, NY: Humana Press (2019) ISBN 978-1-4939-9044-3, 441-472. https://doi.org/10.1007/978-1-4939-9045-0_28

Pont C, Leroy T, Seidel M, Tondelli A, Duchemin W, Armisen D, Lang D, Bustos-Korts D, Goué N, Balfourier F, Molnár-Láng M, Lage J, Kilian B, Özkan H, Waite D, Dyer S, Letellier T, Alaux M, Russell J, Keller B, van Eeuwijk F, Spannagl M, Mayer K F X, Waugh R, Stein N, Cattivelli L, Haberer G, Charmet G, Salse J, Wheat and Barley Legacy for Breeding Improvement Consortium:

Tracing the ancestry of modern bread wheats. Nat. Genet. 51 (2019) 905-911. https://dx.doi.org/10.1038/s41588-019-0393-z

Rabanus-Wallace M T, Stein N:

Progress in sequencing of Triticeae genomes and future uses. In: Miedaner T, Korzun V (Eds.): Applications of genetic and genomic research in cereals. (Woodhead Publishing Series in Food Science, Technology and Nutrition) Duxford, UK u.a.: Elsevier Ltd. (2019) ISBN 978-0-08-102163-7, 19-48. https://doi.org/10.1016/B978-0-08-102163-7.00002-8

Radchuk V, Sharma R, Potokina E, Radchuk R, Weier D, Munz E, Schreiber M, Mascher M, Stein N, Wicker T, Kilian B, Borisjuk L:

The highly divergent Jekyll genes, required for sexual reproduction, are lineage specific for the related grass tribes Triticeae and Bromeae. Plant J. 98 (2019) 961-974. https://dx.doi.org/10.1111/tpj.14363

Schreiber M, Himmelbach A, Börner A, Mascher M:

Genetic diversity and relationship of domesticated rye and its wild relatives as revealed through genotyping-by-sequencing. Evol. Appl. 12 (2019) 66-77. https://dx.doi.org/10.1111/eva.12624

White L C, Fontsere C, Lizano E, Hughes D A, Angedakin S, Arandjelovic M, Granjon A C, Hans J B, Lester J D, Rabanus-Wallace M T, Rowney C, Städele V, Marques-Bonet T, Langergraber K E, Vigilant L:

A roadmap for high-throughput sequencing studies of wild animal populations using non-invasive samples and hybridization capture. Mol. Ecol. Resour. 19 (2019) 609-622. https://dx.doi.org/10.1111/1755-0998.12993


Altmann S, Muino J M, Lortzing V, Brandt R, Himmelbach A, Altschmied L, Hilker M:

Transcriptomic basis for reinforcement of elm antiherbivore defence mediated by insect egg deposition. Mol. Ecol. 27 (2018) 4901-4915. https://dx.doi.org/10.1111/mec.14900

Brandt R, Mascher M, Thiel J:

Laser-capture microdissection-based RNA-seq of barley grain tissues. In: Murray G I (Ed.): Laser Capture Microdissection: Methods and Protocols. (Series: Methods in molecular biology, Vol. 1723) New York, NY: Humana Press (2018) ISBN 978-1-4939-7557-0, 397-409. https://doi.org/10.1007/978-1-4939-7558-7_23

Braumann I, Dockter C, Beier S, Himmelbach A, Lok F, Lundqvist U, Skadhauge B, Stein N, Zakhrabekova S, Zhou R, Hansson M:

Mutations in the gene of the Gα subunit of the heterotrimeric G protein are the cause for the brachytic1 semi-dwarf phenotype in barley and applicable for practical breeding. Hereditas 155 (2018) 10. https://dx.doi.org/10.1186/s41065-017-0045-1

Chen J, Scholz U, Zhou R, Lange M:

LAILAPS-QSM: A RESTful API and JAVA library for semantic query suggestions. PLoS Comput. Biol. 14 (2018) e1006058. https://dx.doi.org/10.1371/journal.pcbi.1006058

Hansson M, Komatsuda T, Stein N, Muehlbauer G J:

Molecular mapping and cloning of genes and QTLs. In: Stein N, Muehlbauer G J (Eds.): The Barley Genome, 1st ed. (Series: Kole, C (Ed.): Compendium of Plant Genomes) Cham: Springer (2018) ISBN 978-3-319-92528-8, 139-154. https://dx.doi.org/10.1007/978-3-319-92528-8_10

Himmelbach A, Ruban A, Walde I, Šimková H, Doležel J, Hastie A, Stein N, Mascher M:

Discovery of multi-megabase polymorphic inversions by chromosome conformation capture sequencing in large-genome plant species. Plant J. 96 (2018) 1309-1316. https://dx.doi.org/10.1111/tpj.14109

Himmelbach A, Walde I, Mascher M, Stein N:

Tethered chromosome conformation capture sequencing in Triticeae: a valuable tool for genome assembly. Bio-protocol 8 (2018) e2955. https://dx.doi.org/10.21769/BioProtoc.2955

Hoseinzadeh P:

High resolution genetic and physical mapping of a major powdery mildew resistance locus in barley. (PhD Thesis) Göttingen, Georg-August-Universität (2018) 134 pp.

Li J, Zhou R, Endo T R, Stein N:

High-throughput development of SSR marker candidates and their chromosomal assignment in rye (Secale cereale L.). Plant Breed. 137 (2018) 561-572. https://dx.doi.org/10.1111/pbr.12619

Prade V M, Gundlach H, Twardziok S, Chapman B, Tan C, Langridge P, Schulman A H, Stein N, Waugh R, Zhang G, Platzer M, Li C, Spannagl M, Mayer K F X:

The pseudogenes of barley. Plant J. 93 (2018) 502-514. https://dx.doi.org/10.1111/tpj.13794

Rajaraman J, Douchkov D, Lück S, Hensel G, Nowara D, Pogoda M, Rutten T, Meitzel T, Brassac J, Höfle C, Hückelhoven R, Klinkenberg J, Trujillo M, Bauer E, Schmutzer T, Himmelbach A, Mascher M, Lazzari B, Stein N, Kumlehn J, Schweizer P:

Evolutionarily conserved partial gene duplication in the Triticeae tribe of grasses confers pathogen resistance. Genome Biol. 19 (2018) 116. https://dx.doi.org/10.1186/s13059-018-1472-7

Romero C C T, Vermeulen J P, Vels A, Himmelbach A, Mascher M, Niks R E:

Mapping resistance to powdery mildew in barley reveals a large-effect nonhost resistance QTL. Theor. Appl. Genet. 131 (2018) 1031–1045. https://dx.doi.org/10.1007/s00122-018-3055-0

Roorkiwal M, Jarquin D, Singh M K, Gaur P M, Bharadwaj C, Rathore A, Howard R, Srinivasan S, Jain A, Garg V, Kale S, Chitikineni A, Tripathi S, Jones E, Robbins K R, Crossa J, Varshney R K:

Genomic-enabled prediction models using multi-environment trials to estimate the effect of genotype x environment interaction on prediction accuracy in chickpea. Sci. Rep. 8 (2018) 11701. https://dx.doi.org/10.1038/s41598-018-30027-2

Šarhanová P, Pfanzelt S, Brandt R, Himmelbach A, Blattner F R:

SSR-seq: Genotyping of microsatellites using next-generation sequencing reveals higher level of polymorphism as compared to traditional fragment size scoring. Ecol. Evol. 8 (2018) 10817-10833. https://dx.doi.org/10.1002/ece3.4533

Schreiber M, Stein N, Mascher M:

Genomic approaches for studying crop evolution. Genome Biol. 19 (2018) 140. https://dx.doi.org/10.1186/s13059-018-1528-8

Stein N, Mascher M:

Barley genome sequencing amd assembly - a first version reference sequence. In: Stein N, Muehlbauer G J (Eds.): The Barley Genome, 1st ed. (Series: Kole, C (Ed.): Compendium of Plant Genomes) Cham: Springer (2018) ISBN 978-3-319-92528-8, 57-71. https://dx.doi.org/10.1007/978-3-319-92528-8_5

Stein N, Muehlbauer G J (Eds.):

The Barley Genome, 1st ed. (Series: Kole, C (Ed.): Compendium of Plant Genomes) : Springer International Publishing AG (2018) ISBN 978-3-319-92528-8, XVIII, 394 pp. https://dx.doi.org/10.1007/978-3-319-92528-8

The International Wheat Genome Sequencing Consortium (IWGSC; IPK authors: Mascher M, Zhou, R., Himmelbach, A. & co-corresponding author: Stein, N.):

Shifting the limits in wheat research and breeding using a fully annotated reference genome. Science 361 (2018) eaar7191. https://dx.doi.org/10.1126/science.aar7191

Zeng X, Guo Y, Xu Q, Mascher M, Guo G, Li S, Mao L, Liu Q, Xia Z, Zhou J, Yuan H, Tai S, Wang Y, Wei Z, Song L, Zha S, Li S, Tang Y, Bai L, Zhuang Z, He W, Zhao S, Fang X, Gao Q, Yin Y, Wang J, Yang H, Zhang J, Henry R J, Stein N, Tashi N:

Origin and evolution of qingke barley in Tibet. Nat. Commun. 9 (2018) 5433. https://dx.doi.org/10.1038/s41467-018-07920-5


Avni R, Nave M, Barad O, Baruch K, Twardziok S O, Gundlach H, Hale I, Mascher M, Spannagl M, Wiebe K, Jordan K W, Golan G, Deek J, Ben-Zvi B, Ben-Zvi G, Himmelbach A, MacLachlan R P, Sharpe A G, Fritz A, Ben-David R, Budak H, Fahima T, Korol A, Faris J D, Hernandez A, Mikel M A, Levy A A, Steffenson B, Maccaferri M, Tuberosa R, Cattivelli L, Faccioli P, Ceriotti A, Kashkush K, Pourkheirandish M, Komatsuda T, Eilam T, Sela H, Sharon A, Ohad N, Chamovitz D A, Mayer K F X, Stein N, Ronen G, Peleg Z, Pozniak C J, Akhunov E D, Distelfeld A:

Wild emmer genome architecture and diversity elucidate wheat evolution and domestication. Science 357 (2017) 93-97. https://dx.doi.org/10.1126/science.aan0032

Beier S, Himmelbach A, Colmsee C, Zhang X-Q, Barrero R A, Zhang Q, Li L, Bayer M, Bolser D, Taudien S, Groth M, Felder M, Hastie A, Šimková H, Staňková H, Vrána J, Chan S, Muñoz-Amatriaín M, Ounit R, Wanamaker S, Schmutzer T, Aliyeva-Schnorr L, Grasso S, Tanskanen J, Sampath D, Heavens D, Cao S, Chapman B, Dai F, Han Y, Li H, Li X, Lin C, McCooke J K, Tan C, Wang S, Yin S, Zhou G, Poland J A, Bellgard M I, Houben A, Doležel J, Ayling S, Lonardi S, Langridge P, Muehlbauer G J, Kersey P, Clark M D, Caccamo M, Schulman A H, Platzer M, Close T J, Hansson M, Zhang G, Braumann I, Li C, Waugh R, Scholz U, Stein N, Mascher M:

Construction of a map-based reference genome sequence for barley, Hordeum vulgare L. Sci. Data 4 (2017) 170044. https://dx.doi.org/10.1038/sdata.2017.44

Braatz J, Harloff H-J, Mascher M, Stein N, Himmelbach A, Jung C:

CRISPR-Cas9 targeted mutagenesis leads to simultaneous modification of different homoeologous gene copies in polyploid oilseed rape (Brassica napus). Plant Physiol. 174 (2017) 935-942. https://dx.doi.org/10.1104/pp.17.00426

Dreissig S, Fuchs J, Himmelbach A, Mascher M, Houben A:

Sequencing of single pollen nuclei reveals meiotic recombination events at megabase resolution and circumvents segregation distortion caused by postmeiotic processes. Front. Plant Sci. 8 (2017) 1620. https://dx.doi.org/10.3389/fpls.2017.01620

Jost M:

Cloning of the plant development regulatory genes MANY NODED DWARF (MND) and LAXATUM-A (LAX-A) by taking advantage of on improved barley genomics infrastructure. 18. Kurt von Rümker-Vorträge. Vortr. Pflanzenzücht. 86 (2017) 51-58.

Ma W, Gabriel T S, Martis M M, Gursinsky T, Schubert V, Vrana J, Dolezel J, Grundlach H, Altschmied L, Scholz U, Himmelbach A, Behrens S E, Banaei-Moghaddam A M, Houben A:

Rye B chromosomes encode a functional Argonaute-like protein with in vitro slicer activities similar to its A chromosome paralog. New Phytol. 213 (2017) 916-928. https://dx.doi.org/10.1111/nph.14110

Mascher M, Gundlach H, Himmelbach A, Beier S, Twardziok S O, Wicker T, Radchuk V, Dockter C, Hedley P E, Russell J, Bayer M, Ramsay L, Liu H, Haberer G, Zhang X-Q, Zhang Q, Barrero R A, Li L, Taudien S, Groth M, Felder M, Hastie A, Šimková H, Staňková H, Vrána J, Chan S, Muñoz-Amatriaín M, Ounit R, Wanamaker S, Bolser D, Colmsee C, Schmutzer T, Aliyeva-Schnorr L, Grasso S, Tanskanen J, Chailyan A, Sampath D, Heavens D, Clissold L, Cao S, Chapman B, Dai F, Han Y, Li H, Li X, Lin C, McCooke J K, Tan C, Wang P, Wang S, Yin S, Zhou G, Poland J A, Bellgard M I, Borisjuk L, Houben A, Doležel J, Ayling S, Lonardi S, Kersey P, Langridge P, Muehlbauer G J, Clark M D, Caccamo M, Schulman A H, Mayer K F X, Platzer M, Close T J, Scholz U, Hansson M, Zhang G, Braumann I, Spannagl M, Li C, Waugh R, Stein N:

A chromosome conformation capture ordered sequence of the barley genome. Nature 544 (2017) 427-433. https://dx.doi.org/10.1038/nature22043

Stoll A, Harpke D, Schütte C, Stefanczyk N, Brandt R, Blattner F R, Quandt D:

Development of microsatellite markers and assembly of the plastid genome in Cistanthe longiscapa (Montiaceae) based on low-coverage whole genome sequencing. PLoS One 12 (2017) e0178402. https://dx.doi.org/10.1371/journal.pone.0178402

Wendler N, Mascher M, Himmelbach A, Bini F, Kumlehn J, Stein N:

A high-density, sequence-enriched genetic map of Hordeum bulbosum and its collinearity to H. vulgare. Plant Genome 10 (2017) https://dx.doi.org/10.3835/plantgenome2017.06.0049

Wicker T, Schulman A H, Tanskanen J, Spannagl M, Twardziok S, Mascher M, Springer N M, Li Q, Waugh R, Li C, Zhang G, Stein N, Mayer K F X, Gundlach H:

The repetitive landscape of the 5100 Mbp barley genome. Mobile DNA 8 (2017) 22. https://dx.doi.org/10.1186/s13100-017-0102-3

Yang P, Habekuß A, Hofinger B J, Kanyuka K, Kilian B, Graner A, Ordon F, Stein N:

Sequence diversification in recessive alleles of two host factor genes suggests adaptive selection for bymovirus resistance in cultivated barley from East Asia. Theor. Appl. Genet. 130 (2017) 331-344. https://dx.doi.org/10.1007/s00122-016-2814-z

Youssef H M, Mascher M, Ayoub M A, Stein N, Kilian B, Schnurbusch T:

Natural diversity of inflorescence architecture traces cryptic domestication genes in barley (Hordeum vulgare L.). Genet. Resour. Crop Evol. 64 (2017) 843-853. https://dx.doi.org/10.1007/s10722-017-0504-6


Aliyeva-Schnorr L, Stein N, Houben A:

Collinearity of homoeologous group 3 chromosomes in the genus Hordeum and Secale cereale as revealed by 3H-derived FISH analysis. Chromosome Res. 24 (2016) 231-242. https://dx.doi.org/10.1007/s10577-016-9518-8

Beier S, Himmelbach A, Schmutzer T, Felder M, Taudien S, Mayer K F X, Platzer M, Stein N, Scholz U, Mascher M:

Multiplex sequencing of bacterial artificial chromosomes for assembling complex plant genomes. Plant Biotechnol. J. 14 (2016) 1511-1522. https://dx.doi.org/10.1111/pbi.12511

Houben A, Karimi Ashtiyani R, Ishii T, Stein N, Kumlehn J:

Generation of haploid plants. (Industrieanmeldung), Veröffentlichung: 03.03.2016, IPK-Nr. 2014/01. EP 14182719.6 (2016).

Huu C N, Kappel C, Keller B, Sicard A, Takebayashi Y, Breuninger H, Nowak M D, Baurle I, Himmelbach A, Burkart M, Ebbing-Lohaus T, Sakakibara H, Altschmied L, Conti E, Lenhard M:

Presence versus absence of CYP734A50 underlies the style-length dimorphism in primroses. eLife 5 (2016) e17956. https://dx.doi.org/10.7554/eLife.17956

Jost M:

Cloning of the plant development regulatory genes MANY NODED DWARF (MND) and LAXATUM-A (LAX-A) by taking advantage of an improved barley genomics infrastructure. (PhD Thesis) Halle/S., Martin-Luther-Universität Halle-Wittenberg, Institut für Agrar- und Ernährungswissenschaften der Naturwissenschaftlichen Fakultät III (2016) 184 pp.

Jöst M, Hensel G, Kappel C, Druka A, Sicard A, Hohmann U, Beier S, Himmelbach A, Waugh R, Kumlehn J, Stein N, Lenhard M:

The INDETERMINATE DOMAIN protein BROAD LEAF1 limits barley leaf width by restricting lateral proliferation. Curr. Biol. 26 (2016) 903-909. https://dx.doi.org/10.1016/j.cub.2016.01.047

Jost M, Taketa S, Mascher M, Himmelbach A, Yuo T, Shahinnia F, Rutten T, Druka A, Schmutzer T, Steuernagel B, Beier S, Taudien S, Scholz U, Morgante M, Waugh R, Stein N:

A homolog of Blade-On-Petiole 1 and 2 (BOP1/2) controls internode length and homeotic changes of the barley inflorescence. Plant Physiol. 171 (2016) 1113-1127. https://dx.doi.org/10.1104/pp.16.00124

Mascher M, Schuenemann V J, Davidovich U, Marom N, Himmelbach A, Hübner S, Korol A, David M, Reiter E, Riehl S, Schreiber M, Vohr S H, Green R E, Dawson I K, Russell J, Kilian B, Muehlbauer G J, Waugh R, Fahima T, Krause J, Weiss E, Stein N:

Genomic analysis of 6,000-year-old cultivated grain illuminates the domestication history of barley. Nat. Genet. 48 (2016) 1089-1093. https://dx.doi.org/10.1038/ng.3611

Nakamura S, Pourkheirandish M, Morishige H, Kubo Y, Nakamura M, Ichimura K, Seo S, Kanamori H, Wu J, Ando T, Hensel G, Sameri M, Stein N, Sato K, Matsumoto T, Yano M, Komatsuda T:

Mitogen-Activated Protein Kinase 3 regulates seed dormancy in barley. Curr. Biol. 26 (2016) 775-781. https://dx.doi.org/10.1016/j.cub.2016.01.024

Russell J, Mascher M, Dawson I K, Kyriakidis S, Calixto C, Freund F, Bayer M, Milne I, Marshall-Griffiths T, Heinen S, Hofstad A, Sharma R, Himmelbach A, Knauft M, van Zonneveld M, Brown J W, Schmid K, Kilian B, Muehlbauer G J, Stein N, Waugh R:

Exome sequencing of geographically diverse barley landraces and wild relatives gives insights into environmental adaptation. Nat. Genet. 48 (2016) 1024-1030. https://dx.doi.org/10.1038/ng.3612

Wendler N:

Unlocking the secondary gene pool of barley for breeding and research. (PhD Thesis, kumulativ) Halle/S., Martin-Luther-Universität Halle-Wittenberg, Institut für Agrar- und Ernährungswissenschaften der Naturwissenschaftlichen Fakultät III (2016) 111 pp.


Aliyeva-Schnorr L, Beier S, Karafiátová M, Schmutzer T, Scholz U, Doležel J, Stein N, Houben A:

Cytogenetic mapping with centromeric BAC contigs shows that this recombination-poor region comprises more than half of barley chromosome 3H. Plant J. 84 (2015) 385–394. https://dx.doi.org/10.1111/tpj.13006

Banaei-Moghaddam A M, Martis M M, Macas J, Gundlach H, Himmelbach A, Altschmied L, Mayer K F, Houben A:

Genes on B chromosomes: Old questions revisited with new tools. Biochim. Biophys. Acta 1849 (2015) 64-70. https://dx.doi.org/10.1016/j.bbagrm.2014.11.007

Brown R H, Singh J, Singh S, Dahleen L S, Lemaux P G, Stein N, Mascher M, Bregitzer P:

Behavior of a modified Dissociation element in barley: a tool for genetic studies and for breeding transgenic barley. Mol. Breed. 35 (2015) 85. https://dx.doi.org/10.1007/s11032-015-0193-9

Chapman J A, Mascher M, Buluç A, Barry K, Georganas E, Session A, Strnadova V, Jenkins J, Seghal S, Oliker L, Schmutz J, Yelick K A, Scholz U, Waugh R, Poland J A, Muehlbauer G J, Stein N, Rokhsar D S:

A whole-genome shotgun approach for assembling and anchoring the hexaploid bread wheat genome. Genome Biol. 16 (2015) 26. https://dx.doi.org/10.1186/s13059-015-0582-8

Colmsee C, Beier S, Himmelbach A, Schmutzer T, Stein N, Scholz U, Mascher M:

BARLEX – the barley draft genome explorer. Mol. Plant 8 (2015) 964-966. https://dx.doi.org/10.1016/j.molp.2015.03.009

Cviková K, Cattonaro F, Alaux M, Stein N, Mayer K F, Doležel J, Bartoš J:

High-throughput physical map anchoring via BAC-pool sequencing. BMC Plant Biol. 15 (2015) 99. https://dx.doi.org/10.1186/s12870-015-0429-1

Karimi-Ashtiyani R, Ishii T, Niessen M, Stein N, Heckmann S, Gurushidze M, Banaei-Moghaddam A M, Fuchs J, Schubert V, Koch K, Weiss O, Demidov D, Schmidt K, Kumlehn J, Houben A:

Point mutation impairs centromeric CENH3 loading and induces haploid plants. Proc. Natl. Acad. Sci. U.S.A. 112 (2015) 11211-11216. https://dx.doi.org/10.1073/pnas.1504333112

Li J, Gyawali Y P, Zhou R, Stein N, Nasuda S, Endo T R:

Comparative study of the structure of chromosome 1R derived from Secale montanum and Secale cereale. Plant Breed. 134 (2015) 675-683. https://dx.doi.org/10.1111/pbr.12314

Li M:

Map-based cloning of the gene albostrians in barley (Hordeum vulgare L.). (PhD Thesis) Berlin, Humboldt-Universität zu Berlin, Lebenswissenschaftliche Fakultät (2015) 140 pp.

Muñoz-Amatriaín M, Lonardi S, Luo M, Madishetty K, Svensson J, Moscou M, Wanamaker S, Jiang T, Kleinhofs A, Muehlbauer G, Wise R, Stein N, Ma Y, Rodriguez E, Kudrna D, Bhat P R, Chao S, Condamine P, Heinen S, Resnik J, Wing R, Witt H N, Alpert M, Beccuti M, Bozdag S, Cordero F, Mirebrahim H, Ounit R, Wu Y, You F, Zheng J, Šimková H, Doležel J, Grimwood J, Schmutz J, Duma D, Altschmied L, Blake T, Bregitzer P, Cooper L, Dilbirligi M, Falk A, Feiz L, Graner A, Gustafson P, Hayes P, Lemaux P, Mammadov J, Close T:

Sequencing of 15,622 gene-bearing BACs clarifies the gene-dense regions of the barley genome. Plant J. 84 (2015) 216-227. https://dx.doi.org/10.1111/tpj.12959

Neumann K, Klukas C, Friedel S, Rischbeck P, Chen D, Entzian A, Stein N, Graner A, Kilian B:

Dissecting spatio-temporal biomass accumulation in barley under different water regimes using high-throughput image analysis. Plant Cell Environ. 38 (2015) 1980-1996. https://dx.doi.org/10.1111/pce.12516

Perovic J, Silvar C, Perovic D, Stein N, Ordon F:

Fluorescence-based CAPS multiplex genotyping on capillary electrophoresis systems. Bio-protocol 5 (2015) e1472.

Pourkheirandish M, Hensel G, Kilian B, Senthil N, Chen G, Sameri M, Azhaguvel P, Sakuma S, Dhanagond S, Sharma R, Mascher M, Himmelbach A, Gottwald S, Nair S K, Tagiri A, Yukuhiro F, Nagamura Y, Kanamori H, Matsumoto T, Willcox G, Middleton C P, Wicker T, Walther A, Waugh R, Fincher G B, Stein N, Kumlehn J, Sato K, Komatsuda T:

Evolution of the grain dispersal system in barley. Cell 162 (2015) 527-539. https://dx.doi.org/10.1016/j.cell.2015.07.002

Staňková H, Valárik M, Lapitan N V, Berkman P, Batley J, Edwards D, Luo M-C, Tulpová Z, Kubaláková M, Stein N, Doležel J, Šimková H:

Chromosomal genomics facilitates fine mapping of a Russian wheat aphid resistance gene. Theor. Appl. Genet. 128 (2015) 1373-1383. https://dx.doi.org/10.1007/s00122-015-2512-2

Tavakol E, Okagaki R, Verderio G, Shariati V, Hussien A, Bilgic H, Scanlon M J, Todt N R, Close T J, Druka A, Waugh R, Steuernagel B, Ariyadasa R, Himmelbach A, Stein N, Muehlbauer G J, Rossini L:

The barley Uniculme4 gene encodes a BLADE-ON-PETIOLE-like protein that controls tillering and leaf patterning. Plant Physiol. 168 (2015) 164-174. https://dx.doi.org/10.1104/pp.114.252882

Ui H, Sameri M, Pourkheirandish M, Chang M C, Shimada H, Stein N, Komatsuda T, Handa H:

High-resolution genetic mapping and physical map construction for the fertility restorer Rfm1 locus in barley. Theor. Appl. Genet. 128 (2015) 283-290. https://dx.doi.org/10.1007/s00122-014-2428-2

Vu G T H, Schmutzer T, Bull F, Cao H X, Fuchs J, Tran D T, Jovtchev G, Pistrick K, Stein N, Pecinka A, Neumann P, Novák P, Macas J, Dear P H, Blattner F R, Scholz U, Schubert I:

Comparative genome analysis reveals divergent genome size evolution in a carnivorous plant genus. Plant Genome 8 (2015) 1-14. https://dx.doi.org/10.3835/plantgenome2015.04.0021

Wendler N, Mascher M, Himmelbach A, Johnston P, Pickering R, Stein N:

Bulbosum to go: a toolbox to utilize Hordeum vulgare/ bulbosum introgressions for breeding and beyond. Mol. Plant 8 (2015) 1507-1519. https://dx.doi.org/10.1016/j.molp.2015.05.004

Zakhrabekova S, Dockter C, Ahmann K, Braumann I, Gough S P, Wendt T, Lundqvist U, Mascher M, Stein N, Hansson M:

Genetic linkage facilitates cloning of Ert-m regulating plant architecture in barley and identified a strong candidate of Ant1 involved in anthocyanin biosynthesis. Plant Mol. Biol. 88 (2015) 609-626. https://dx.doi.org/10.1007/s11103-015-0350-x

Zang W, Eckstein P E, Colin M, Voth D, Himmelbach A, Beier S, Stein N, Scoles G J, Beattie A D:

Fine mapping and identification of a candidate gene for the barley Un8 true loose smut resistance gene. Theor. Appl. Genet. 128 (2015) 1343-1357. https://dx.doi.org/10.1007/s00122-015-2510-4


Ariyadasa R, Mascher M, Nussbaumer T, Schulte D, Frenkel Z, Poursarebani N, Zhou R, Steuernagel B, Gundlach H, Taudien S, Felder M, Platzer M, Himmelbach A, Schmutzer T, Hedley P E, Muehlbauer G J, Scholz U, Korol A, Mayer K F X, Waugh R, Langridge P, Graner A, Stein N:

A sequence-ready physical map of barley anchored genetically by two million single-nucleotide polymorphisms. Plant Physiol. 164 (2014) 412-423. https://dx.doi.org/10.1104/pp.113.228213

Bolger M E, Weisshaar B, Scholz U, Stein N, Usadel B, Mayer K F:

Plant genome sequencing - applications for crop improvement. Curr. Opin. Biotechnol. 26 (2014) 31-37. https://dx.doi.org/10.1016/j.copbio.2013.08.019

Braumann I, Stein N, Hansson M:

Reduced chlorophyll biosynthesis in heterozygous barley magnesium chelatase mutants. Plant Physiol. Biochem. 78 (2014) 10-14. https://dx.doi.org/10.1016/j.plaphy.2014.02.004

Douchkov D, Lück S, Johrde A, Nowara D, Himmelbach A, Rajaraman J, Stein N, Sharma R, Kilian B, Schweizer P:

Discovery of genes affecting resistance of barley to adapted and non-adapted powdery mildew fungi. Genome Biol. 15 (2014) 518. https://dx.doi.org/10.1186/s13059-014-0518-8

Gawroński P, Ariyadasa R, Himmelbach A, Poursarebani N, Kilian B, Stein N, Steuernagel B, Hensel G, Kumlehn J, Sehgal S K, Gill B S, Gould P, Hall A, Schnurbusch T:

A distorted circadian clock causes early flowering and temperature-dependent variation in spike development in the Eps-3Am mutant of einkorn wheat. Genetics 196 (2014) 1253-1261. https://dx.doi.org/10.1534/genetics.113.158444

Himmelbach A, Knauft M, Stein N:

Plant sequence capture optimised for illumina sequencing. Bio-protocol 4 (2014) e1166.

Kumlehn J, Stein N (Eds.):

Biotechnological approaches to barley improvement. (Series: Widholm J., J. Kumlehn & T. Nagata (Eds.): Biotechnology in agriculture and forestry, Vol. 69) Berlin Heidelberg: Springer (2014) ISBN 978-3-662-44405-4, 433 pp.

Kunze G, Gaillardin C, Czernicka M, Durrens P, Martin T, Böer E, Gabaldón T, Cruz J A, Talla E, Marck C, Goffeau A, Barbe V, Baret P, Baronian K, Beier S, Bleykasten C, Bode R, Casaregola S, Despons L, Fairhead C, Giersberg M, Gierski P P, Hähnel U, Hartmann A, Jankowska D, Jubin C, Jung P, Lafontaine I, Leh-Louis V, Lemaire M, Marcet-Houben M, Mascher M, Morel G, Richard G-F, Riechen J, Sacerdot C, Sarkar A, Savel G, Schacherer J, Sherman D J, Stein N, Straub M-L, Thierry A, Trautwein-Schult A, Vacherie B, Westhof E, Worch S, Dujon B, Souciet J-L, Wincker P, Scholz U, Neuvéglise C:

The complete genome of Blastobotrys (Arxula) adeninivorans LS3 - a yeast of biotechnological interest. Biotechnol. Biofuels 7 (2014) 66. https://dx.doi.org/10.1186/1754-6834-7-66

Lüpken T, Stein N, Perovic D, Habekuß A, Serfling A, Krämer I, Hähnel U, Steuernagel B, Scholz U, Ariyadasa R, Martis M M, Mayer K F X, Niks R E, Collins N C, Friedt W, Ordon F:

High resolution mapping of the barley Ryd3 locus controlling tolerance to BYDV. Mol. Breed. 33 (2014) 477-488. https://dx.doi.org/10.1007/s11032-013-9966-1

Mascher M, Jost M, Kuon J E, Himmelbach A, Assfalg A, Beier S, Scholz U, Graner A, Stein N:

Mapping-by-sequencing accelerates forward genetics in barley. Genome Biol. 15 (2014) R78. https://dx.doi.org/10.1186/gb-2014-15-6-r78

Mascher M, Stein N:

Genetic anchoring of whole-genome shotgun assemblies. Front. Genet. 5 (2014) 208. https://dx.doi.org/10.3389/fgene.2014.00208

Mazaheri M, Kianian P M A, Mergoum M, Valentini G L, Seetan R, Pirseyedi S M, Kumar A, Gu Y Q, Stein N, Kubaláková M, Doležel J, Denton A M, Kianian S F:

Transposable element junctions in marker development and genomic characterization of barley. Plant Genome 7 (2014) https://dx.doi.org/10.3835/plantgenome2013.10.0036

Middleton C P, Senerchia N, Stein N, Akhunov E D, Keller B, Wicker T, Kilian B:

Sequencing of chloroplast genomes from wheat, barley, rye and their relatives provides a detailed insight into the evolution of the Triticeae tribe. PLoS One 9 (2014) e85761. https://dx.doi.org/10.1371/journal.pone.0085761

Pankin A, Campoli C, Dong X, Kilian B, Sharma R, Himmelbach A, Saini R, Davis S J, Stein N, Schneeberger K, von Korff M:

Mapping-by-sequencing identifies HvPHYTOCHROME C as a candidate gene for the early maturity 5 locus modulating the circadian clock and photoperiodic flowering in barley. Genetics 198 (2014) 383-396. https://dx.doi.org/10.1534/genetics.114.165613

Pasquariello M, Barabaschi D, Himmelbach A, Steuernagel B, Ariyadasa R, Stein N, Gandolfi F, Tenedini E, Bernardis I, Tagliafico E, Pecchioni N, Francia E:

The barley Frost resistance-H2 locus. Funct. Integr. Genomics 14 (2014) 85-100. https://dx.doi.org/10.1007/s10142-014-0360-9

Poursarebani N, Ma L, Schmutzer T, Houben A, Stein N:

FISH mapping for physical map improvement in the large genome of barley: a case study on chromosome 2H. Cytogenet. Genome Res. 143 (2014) 275-279. https://dx.doi.org/10.1159/000366028

Poursarebani N, Nussbaumer T, Šimková H, Šafář J, Witsenboer H, van Oeveren J, International Wheat Genome Sequencing C, Doležel J, Mayer K F X, Stein N, Schnurbusch T:

Whole-genome profiling and shotgun sequencing delivers an anchored, gene-decorated, physical map assembly of bread wheat chromosome 6A. Plant J. 79 (2014) 334-347. https://dx.doi.org/10.1111/tpj.12550

Schmutzer T, Ma L, Pousarebani N, Bull F, Stein N, Houben A, Scholz U:

Kmasker – a tool for in silico prediction of single-copy FISH probes for the large-genome species Hordeum vulgare. Cytogenet. Genome Res. 142 (2014) 66-78. https://dx.doi.org/10.1159/000356460

Stein N:

Development of sequence resources. In: Kumlehn J, Stein N (Eds.): Biotechnological approaches to barley improvement. (Series: Biotechnology in agriculture and forestry, Vol. 69) Berlin: Springer (2014) ISBN 978-3-662-44405-4, 271-285. https://dx.doi.org/10.1007/978-3-662-44406-1_14

Stein N:

Erfolgstory: Gerste Genomsequenzierung. GFP Geschäftsbericht (2014) 17-18.

Stein N, Steuernagel B:

Advances in sequencing the barley genome. In: Tuberosa R, Graner A, Frison E (Eds.): Genomics of plant genetic resources. Vol. 1. Managing, sequencing and mining genetic resources. Dordrecht [u.a.]: Springer (2014) ISBN 978-94-007-7571-8, 391-403. https://dx.doi.org/10.1007/978-94-007-7572-5_16

Stein N, Yang P, Lüpken P, Ordon F:

New isolated nucleic acid comprising specified nucleotide sequences, useful in a gene marker i.e. useful for the selection and/or isolation of a barley plant having a resistance against yellow mosaic virus. (Patent), Veröffentlichung: 21.08.2014, IPK-Nr. 2012/14. DE102013101617 (2014).

The International Wheat Genome Sequencing Consortium (IWGSC; IPK Authors: Mascher M, Scholz, U. & Stein, N.):

A chromosome-based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome. Science 345 (2014) 1251788. https://dx.doi.org/10.1126/science.1251788

Wendler N, Mascher M, Nöh C, Himmelbach A, Scholz U, Ruge-Wehling B, Stein N:

Unlocking the secondary gene-pool of barley with next-generation sequencing. Plant Biotechnol. J. 12 (2014) 1122-1131. https://dx.doi.org/10.1111/pbi.12219

Yang P:

Map-based coning of susceptibility factors for Bymovirus in barley (H. vulgare L.). (PhD Thesis) Halle/S., Martin-Luther-Universität Halle-Wittenberg, Institut für Agrar- und Ernährungswissenschaften der Naturwissenschaftlichen Fakultät III (2014) 92 pp.

Yang P, Habekuß A, Ordon F, Stein N:

Analysis of bymovirus resistance genes on proximal barley chromosome 4HL provides the basis for precision breeding for BaMMV/BaYMV resistance. Theor. Appl. Genet. 127 (2014) 1625-1634. https://dx.doi.org/10.1007/s00122-014-2324-9

Yang P, Lüpken T, Habekuss A, Hensel G, Steuernagel B, Kilian B, Ariyadasa R, Himmelbach A, Kumlehn J, Scholz U, Ordon F, Stein N:

PROTEIN DISULFIDE ISOMERASE LIKE 5-1 is a susceptibility factor to plant viruses. Proc. Natl. Acad. Sci. U.S.A. 111 (2014) 2104-2109. https://dx.doi.org/10.1073/pnas.1320362111


Biselli C, Urso S, Tacconi G, Steuernagel B, Schulte D, Gianinetti A, Bagnaresi P, Stein N, Cattivelli L, Valè G:

Haplotype variability and identification of new functional alleles at the Rdg2a leaf stripe resistance gene locus. Theor. Appl. Genet. 126 (2013) 1575-1586. https://dx.doi.org/10.1007/s00122-013-2075-z

Karafiátová M, Bartoš J, Kopecký D, Ma L, Sato K, Houben A, Stein N, Doležel J:

Mapping nonrecombining regions in barley using multicolor FISH. Chromosome Res. 21 (2013) 739-751. https://dx.doi.org/10.1007/s10577-013-9380-x

Koppolu R, Anwar N, Sakuma S, Tagiri A, Lundqvist U, Pourkheirandish M, Rutten T, Seiler C, Himmelbach A, Ariyadasa R, Youssef H M, Stein N, Sreenivasulu N, Komatsuda T, Schnurbusch T:

Six-rowed spike4 (Vrs4) controls spikelet determinacy and row-type in barley. Proc. Natl. Acad. Sci. U. S. A. 110 (2013) 13198-13203. https://dx.doi.org/10.1073/pnas.1221950110

Lüpken T, Stein N, Perovic D, Habekuss A, Kramer I, Hähnel U, Steuernagel B, Scholz U, Zhou R, Ariyadasa R, Taudien S, Platzer M, Martis M, Mayer K, Friedt W, Ordon F:

Genomics-based high-resolution mapping of the BaMMV/BaYMV resistance gene rym11 in barley (Hordeum vulgare L.). Theor. Appl. Genet. 126 (2013) 1201-1212. https://dx.doi.org/10.1007/s00122-013-2047-3

Martis M M, Zhou R, Haseneyer G, Schmutzer T, Vrána J, Kubaláková M, König S, Kugler K G, Scholz U, Hackauf B, Korzun V, Schön C-C, Doležel J, Bauer E, Mayer K F X, Stein N:

Reticulate evolution of the rye genome. Plant Cell 25 (2013) 3685-3698. https://dx.doi.org/10.1105/tpc.113.114553

Mascher M, Muehlbauer G J, Rokhsar D S, Chapman J, Schmutz J, Barry K, Munoz-Amatriain M, Close T J, Wise R P, Schulman A H, Himmelbach A, Mayer K F, Scholz U, Poland J A, Stein N, Waugh R:

Anchoring and ordering NGS contig assemblies by population sequencing (POPSEQ). Plant J. 76 (2013) 718-727. https://dx.doi.org/10.1111/tpj.12319

Mascher M, Richmond T A, Gerhardt D J, Himmelbach A, Clissold L, Sampath D, Ayling S, Steuernagel B, Pfeifer M, DAscenzo M, Akhunov E D, Hedley P E, Gonzales A M, Morrell P L, Kilian B, Blattner F R, Scholz U, Mayer K F, Flavell A J, Muehlbauer G J, Waugh R, Jeddeloh J A, Stein N:

Barley whole exome capture: a tool for genomic research in the genus Hordeum and beyond. Plant J. 76 (2013) 494-505. https://dx.doi.org/10.1111/tpj.12294

Mascher M, Wu S, Amand P S, Stein N, Poland J:

Application of genotyping-by-sequencing on semiconductor sequencing platforms: a comparison of genetic and reference-based marker ordering in barley. PLoS One 8 (2013) e76925. https://dx.doi.org/10.1371/journal.pone.0076925

Matthies I E, Weise S, Förster J, Korzun V, Stein N, Röder M S:

Nitrogen-metabolism related genes in barley - haplotype diversity, linkage mapping and associations with malting and kernel quality parameters. BMC Genet 14 (2013) e77. https://dx.doi.org/10.1186/1471-2156-14-77

McCouch S, Baute G J, Bradeen J, Bramel P, Bretting P K, Buckler E, Burke J M, Charest D, Cloutier S, Cole G, Dempewolf H, Dingkuhn M, Feuillet C, Gepts P, Grattapaglia D, Guarino L, Jackson S, Knapp S, Langridge P, Lawton-Rauh A, Lijua Q, Lusty C, Michael T, Myles S, Naito K, Nelson R L, Pontarollo R, Richards C M, Rieseberg L, Ross-Ibarra J, Rounsley S, Hamilton R S, Schurr U, Stein N, Tomooka N, van der Knaap E, van Tassel D, Toll J, Valls J, Varshney R K, Ward J, Waugh R, Wenzl P, Zamir D:

Agriculture: Feeding the future. Nature 499 (2013) 23-24. https://dx.doi.org/10.1038/499023a

Middleton C P, Stein N, Keller B, Kilian B, Wicker T:

Comparative analysis of genome composition in Triticeae reveals strong variation in transposable element dynamics and nucleotide diversity. Plant J. 73 (2013) 347-356. https://dx.doi.org/10.1111/tpj.12048

Muñoz-Amatriaín M, Eichten S R, Wicker T, Richmond T A, Mascher M, Steuernagel B, Scholz U, Ariyadasa R, Spannagl M, Nussbaumer T, Mayer K F X, Taudien S, Platzer M, Jeddeloh J A, Springer N M, Muehlbauer G J, Stein N:

Distribution, functional impact, and origin mechanisms of copy number variation in the barley genome. Genome Biol. 14 (2013) R58. https://dx.doi.org/10.1186/gb-2013-14-6-r58

Perovic J, Silvar C, Koenig J, Stein N, Perovic D, Ordon F:

A versatile fluorescence-based multiplexing assay for CAPS genotyping on capillary electrophoresis systems. Mol. Breed. 32 (2013) 61-69. https://dx.doi.org/10.1007/s11032-013-9852-x

Poursarebani N, Ariyadasa R, Zhou R, Schulte D, Steuernagel B, Martis M M, Graner A, Schweizer P, Scholz U, Mayer K, Stein N:

Conserved synteny-based anchoring of the barley genome physical map. Funct. Integr. Genomics 13 (2013) 339-350. https://dx.doi.org/10.1007/s10142-013-0327-2

Sakuma S, Pourkheirandish M, Hensel G, Kumlehn J, Stein N, Tagiri A, Yamaji N, Ma J F, Sassa H, Koba T, Komatsuda T:

Divergence of expression pattern contributed to neofunctionalization of duplicated HD-Zip I transcription factor in barley. New Phytol. 197 (2013) 939-948. https://dx.doi.org/10.1111/nph.12068

Yang P, Lüpken T, Ordon F, Stein N:

Mittel zur Selektion und/oder Erzeugung von gegen Gelbmosaikvirose resistenter Gerste (Patentantrag). (2013) PAT 1448.

Yang P, Perovic D, Habekuss A, Zhou R, Graner A, Ordon F, Stein N:

Gene-based high-density mapping of the gene rym7 conferring resistance to Barley mild mosaic virus (BaMMV). Mol. Breed. 32 (2013) 27-37. https://dx.doi.org/10.1007/s11032-013-9842-z


Ariyadasa R, Stein N:

Advances in BAC-based physical mapping and map integration strategies in plants. J. Biomed. Biotechnol. 2012 (2012) 11 pages, Article ID 184854. https://dx.doi.org./10.1155/2012/184854

Buchmann J P, Matsumoto T, Stein N, Keller B, Wicker T:

Interspecies sequence comparison of Brachypodium reveals how transposon activity corrodes genome colinearity. Plant J. 71 (2012) 550-563. https://dx.doi.org/10.1111/j.1365-313X.2012.05007.x

Cockram J, Thiel T, Steuernagel B, Stein N, Taudien S, Bailey P C, OSullivan D M:

Genome dynamics explain the evolution of flowering time CCT domain gene families in the Poaceae. PLoS One 7 (2012) e45307. https://dx.doi.org/10.1371/journal.pone.0045307

Comadran J, Kilian B, Russell J, Ramsay L, Stein N, Ganal M, Shaw P, Bayer M, Thomas W, Marshall D, Hedley P, Tondelli A, Pecchioni N, Francia E, Korzun V, Walther A, Waugh R:

Natural variation in a homolog of Antirrhinum CENTRORADIALIS contributed to spring growth habit and environmental adaptation in cultivated barley. Nat. Genet. 44 (2012) 1388-1392. https://dx.doi.org/10.1038/ng.2447

Feuillet C, Stein N, Rossini L, Praud S, Mayer K, Schulman A, Eversole K, Appels R:

Integrating cereal genomics to support innovation in the Triticeae. Funct. Integr. Genomics 12 (2012) 573-583. https://dx.doi.org/10.1007/s10142-012-0300-5

Houston K, Druka A, Bonar N, Macaulay M, Lundqvist U, Franckowiak J, Morgante M, Stein N, Waugh R:

Analysis of the barley bract suppression gene Trd1. Theor. Appl. Genet. 125 (2012) 33-45. https://dx.doi.org/10.1007/s00122-012-1814-x

Huynh B L, Mather D E, Schreiber A W, Toubia J, Baumann U, Shoaei Z, Stein N, Ariyadasa R, Stangoulis J C, Edwards J, Shirley N, Langridge P, Fleury D:

Clusters of genes encoding fructan biosynthesizing enzymes in wheat and barley. Plant Mol. Biol. 80 (2012) 299-314. https://dx.doi.org/10.1007/s11103-012-9949-3

Mameaux S, Cockram J, Thiel T, Steuernagel B, Stein N, Taudien S, Jack P, Werner P, Gray J C, Greenland A J, Powell W:

Molecular, phylogenetic and comparative genomic analysis of the cytokinin oxidase/dehydrogenase gene family in the Poaceae. Plant Biotechnol. J. 10 (2012) 67-82. https://dx.doi.org/10.1111/j.1467-7652.2011.00645.x

Martis M M, Klemme S, Banaei Moghaddam A M, Blattner F R, Macas J, Schmutzer T, Scholz U, Gundlach H, Wicker T, Šimková H, Novák P, Neumann P, Kubaláková M, Bauer E, Haseneyer G, Fuchs J, Doležel J, Stein N, Mayer K F X, Houben A:

Selfish supernumerary chromosome reveals its origin as a mosaic of host genome and organellar sequences. Proc. Natl. Acad. Sci. U.S.A. 109 (2012) 13343-13346. https://dx.doi.org/10.1073/pnas.1204237109

Mayer K F X, Waugh R, Langridge P, Close T J, Wise R P, Graner A, Matsumoto T, Sato K, Schulman A, Ariyadasa R, Schulte D, Poursarebani N, Zhou R, Steuernagel B, Mascher M, Scholz U, Shi B, Madishetty K, Svensson J T, Bhat P, Moscou M, Resnik J, Muehlbauer G J, Hedley P, Liu H, Morris J, Frenkel Z, Korol A, Bergès H, Taudien S, Felder M, Groth M, Platzer M, Himmelbach A, Lonardi S, Duma D, Alpert M, Cordero F, Beccuti M, Ciardo G, Ma Y, Wanamaker S, Cattonaro F, Vendramin V, Scalabrin S, Radovic S, Wing R, Morgante M, Nussbaumer T, Gundlach H, Martis M, Poland J, Pfeifer M, Moisy C, Tanskanen J, Zuccolo A, Spannagl M, Russell J, Druka A, Marshall D, Bayer M, Swarbreck D, Sampath D, Ayling S, Febrer M, Caccamo M, Tanaka T, Wannamaker S, Schmutzer T, Brown J W S, Fincher G B, Stein N:

A physical, genetic and functional sequence assembly of the barley genome. Nature 491 (2012) 711-716. https://dx.doi.org/10.1038/nature11543

Neumann K, Stein N, Graner A, Klukas C, Entzian A, Kilian B:

Non-destructive phenotyping using the high-throughput LemnaTec-Scanalyzer 3D platform to investigate drought tolerance in barley. In: Börner A, Kobijlski B (Eds.): Proceedings of the 15th International EWAC Conference, 7 - 11 November 2011, Novi Sad, Serbia. (Series: European Wheat Aneuploid Co-operative newsletter, Vol. 15) Gatersleben: Leibniz-Institut für Pflanzengenetik und Kulturpflanzenforschung (2012) 158-160.

Shahinnia F, Druka A, Franckowiak J, Morgante M, Waugh R, Stein N:

High resolution mapping of Dense spike-ar (dsp.ar) to the genetic centromere of barley chromosome 7H. Theor. Appl. Genet. 124 (2012) 373-384. https://dx.doi.org/10.1007/s00122-011-1712-7

Zakhrabekova S, Gough S P, Braumann I, Müller A H, Lundqvist J, Ahmann K, Dockter C, Matyszczak I, Kurowska M, Druka A, Waugh R, Graner A, Stein N, Steuernagel B, Lundqvist U, Hansson M:

Induced mutations in circadian clock regulator Mat-a facilitated short-season adaptation and range extension in cultivated barley. Proc. Natl. Acad. Sci. U.S.A. 109 (2012) 4326-4331. https://dx.doi.org/10.1073/pnas.1113009109


Comadran J, Ramsay L, Mackenzie K, Hayes P, Close T J, Muehlbauer G, Stein N, Waugh R:

Patterns of polymorphism and linkage disequilibrium in cultivated barley. Theor. Appl. Genet. 122 (2011) 523-531. https://dx.doi.org/10.1007/s00122-010-1466-7

Druka A, Franckowiak J, Lundqvist U, Bonar N, Alexander J, Houston K, Radovic S, Shahinnia F, Vendramin V, Morgante M, Stein N, Waugh R:

Genetic dissection of barley morphology and development. Plant Physiol. 155 (2011) 617-627. https://dx.doi.org/10.1104/pp.110.166249

Graner A, Haseneyer G, Kilian B, Pasam R K, Sharma R, Stein N:

Nutzung genetischer Vielfalt: Herausforderung und Perspektiven. Agrar Spektrum 44 (2011) 45-61.

Hartmann A, Czauderna T, Hoffmann R, Stein N, Schreiber F:

HTPheno: An image analysis pipeline for high-throughput plant phenotyping. BMC Bioinformatics 12 (2011) 148. https://dx.doi.org/10.1186/1471-2105-12-148

Haseneyer G, Schmutzer T, Seidel M, Zhou R, Mascher M, Schon C C, Taudien S, Scholz U, Stein N, Mayer K F, Bauer E:

From RNA-seq to large-scale genotyping - genomics resources for rye (Secale cereale L.). BMC Plant Biol. 11 (2011) 131. https://dx.doi.org/10.1186/1471-2229-11-131

Liu H, McNicol J, Bayer M, Morris J A, Cardle L, Marshall D F, Schulte D, Stein N, Shi B J, Taudien S, Waugh R, Hedley P E:

Highly parallel gene-to-BAC addressing using microarrays. Biotechniques 50 (2011) 165-174. https://dx.doi.org/10.2144/000113627

Mayer K F X, Martis M, Hedley P E, Šimková H, Liu H, Morris J A, Steuernagel B, Taudien S, Roessner S, Gundlach H, Kubaláková M, Suchánková P, Murat F, Felder M, Nussbaumer T, Graner A, Salse J, Endo T, Sakai H, Tanaka T, Itoh T, Sato K, Platzer M, Matsumoto T, Scholz U, Doležel J, Waugh R, Stein N:

Unlocking the barley genome by chromosomal and comparative genomics. Plant Cell 23 (2011) 1249-1263. https://dx.doi.org/10.1105/tpc.110.082537

Schulte D, Ariyadasa R, Shi B, Fleury D, Saski C, Atkins M, Dejong P, Wu C C, Graner A, Langridge P, Stein N:

BAC library resources for map-based cloning and physical map construction in barley (Hordeum vulgare L.). BMC Genomics 12 (2011) 247. https://dx.doi.org/10.1186/1471-2164-12-247

Schweizer P, Stein N:

Large-scale data integration reveals co-localization of gene functional groups with meta-QTL for multiple disease resistance in barley. Mol. Plant Microbe Interact. 24 (2011) 1492-1501. https://dx.doi.org/10.1094/MPMI-05-11-0107

Sharma S, Sharma S, Kopisch-Obuch F J, Keil T, Laubach E, Stein N, Graner A, Jung C:

QTL analysis of root-lesion nematode resistance in barley: 1. Pratylenchus neglectus. Theor. Appl. Genet. 122 (2011) 1321-1330. https://dx.doi.org/10.1007/s00122-011-1533-8

Taudien S, Steuernagel B, Ariyadasa R, Schulte D, Schmutzer T, Groth M, Felder M, Petzold A, Scholz U, Mayer K F, Stein N, Platzer M:

Sequencing of BAC pools by different next generation sequencing platforms and strategies. BMC Res Notes 4 (2011) 411. https://dx.doi.org/10.1186/1756-0500-4-411

Wicker T, Mayer K F X, Gundlach H, Martis M, Steuernagel B, Scholz U, Šimková H, Kubaláková M, Choulet F, Taudien S, Platzer M, Feuillet C, Fahima T, Budak H, Doležel J, Keller B, Stein N:

Frequent gene movement and pseudogene evolution is common to the large and complex genomes of wheat, barley, and their relatives. Plant Cell 23 (2011) 1706-1718. https://dx.doi.org/10.1105/tpc.111.086629


Cockram J, White J, Zuluaga D L, Smith D, Comadran J, Macaulay M, Luo Z, Kearsey M J, Werner P, Harrap D, Tapsell C, Liu H, Hedley P E, Stein N, Schulte D, Steuernagel B, Marshall D F, Thomas W T, Ramsay L, Mackay I, Balding D J, Consortium T A, Waugh R, OSullivan D M:

Genome-wide association mapping to candidate polymorphism resolution in the unsequenced barley genome. Proc. Natl. Acad. Sci. U. S. A. 107 (2010) 21611-21616. https://dx.doi.org/10.1073/pnas.1010179107

Druka A, Franckowiak J, Lundqvist U, Bonar N, Alexander J, Guzy-Wrobelska J, Ramsay L, Druka I, Grant I, Macaulay M, Vendramin V, Shahinnia F, Radovic S, Houston K, Harrap D, Cardle L, Marshall D, Morgante M, Stein N, Waugh R:

Exploiting induced variation to dissect quantitative traits in barley. Biochem. Soc. Trans. 38 (2010) 683-688. https://dx.doi.org/10.1042/BST0380683

Kocsy G, Athmer B, Perovic D, Himmelbach A, Szücs A, Vashegyi I, Schweizer P, Galiba G, Stein N:

Regulation of gene expression by chromosome 5A during cold hardening in wheat. Mol. Genet. Genomics 283 (2010) 351-363. https://dx.doi.org/10.1007/s00438-010-0520-0

Ma L, Vu G T, Schubert V, Watanabe K, Stein N, Houben A, Schubert I:

Synteny between Brachypodium distachyon and Hordeum vulgare as revealed by FISH. Chromosome Res. 18 (2010) 841-850. https://dx.doi.org/10.1007/s10577-010-9166-3

Nair S K, Wang N, Turuspekov Y, Pourkheirandish M, Sinsuwongwat S, Chen G X, Sameri M, Tagiri A, Honda I, Watanabe Y, Kanamori H, Wicker T, Stein N, Nagamura Y, Matsumoto T, Komatsuda T:

Cleistogamous flowering in barley arises from the suppression of microRNA-guided HvAP2 mRNA cleavage. Proc. Natl. Acad. Sci. U.S.A. 107 (2010) 490-495. https://dx.doi.org/10.1073/pnas.0909097107

Sečenji M, Lendvai Á, Miskolczi P, Kocsy G, Gallé Á, Szucs A, Hoffmann B, Sárvári É, Schweizer P, Stein N, Dudits D, Györgyey J:

Differences in root functions during long-term drought adaptation: comparison of active gene sets of two wheat genotypes. Plant Biol. 12 (2010) 871-882. https://dx.doi.org/10.1111/j.1438-8677.2009.00295.x

Vu G T, Wicker T, Buchmann J P, Chandler P M, Matsumoto T, Graner A, Stein N:

Fine mapping and syntenic integration of the semi-dwarfing gene sdw3 of barley. Funct. Integr. Genomics 10 (2010) 509-521. https://dx.doi.org/10.1007/s10142-010-0173-4

Waugh R, Marshall D, Thomas B, Comadran J, Russell J, Close T, Stein N, Hayes P, Muehlbauer G, Cockram J, OSullivan D, Mackay I, Flavell A, Ramsay L:

Whole-genome association mapping in elite inbred crop varieties. Genome 53 (2010) 967-972. https://dx.doi.org/10.1139/g10-078


Bolot S, Abrouk M, Masood-Quraishi U, Stein N, Messing J, Feuillet C, Salse J:

The inner circle of the cereal genomes. Curr. Opin. Plant Biol. 12 (2009) 119-125. https://dx.doi.org/10.1016/j.pbi.2008.10.011

Close T J, Bhat P R, Lonardi S, Wu Y, Rostoks N, Ramsay L, Druka A, Stein N, Svensson J T, Wanamaker S, Bozdag S, Roose M L, Moscou M J, Chao S, Varshney R K, Szucs P, Sato K, Hayes P M, Matthews D E, Kleinhofs A, Muehlbauer G J, DeYoung J, Marshall D F, Madishetty K, Fenton R D, Condamine P, Graner A, Waugh R:

Development and implementation of high-throughput SNP genotyping in barley. BMC Genomics 10 (2009) 582. https://dx.doi.org/10.1186/1471-2164-10-582

Eversole K, Graner A, Stein N:

Wheat and barley genome sequencing. In: Feuillet C, Muehlbauer G (Eds.): Genetics and genomics of the Triticeae, 1st ed. (Series: Plant genetics and genomics: crops and models, Vol. 7) New York, NY: Springer (2009) ISBN 978-0-387-77488-6, 713-742. https://dx.doi.org/10.1007/978-0-387-77489-3_24

Gottwald S, Bauer P, Komatsuda T, Lundqvist U, Stein N:

TILLING in the two-rowed barley cultivar Barke reveals preferred sites of functional diversity in the gene HvHox1. BMC Res. Notes 2 (2009) 258. https://dx.doi.org/10.1186/1756-0500-2-258

Gray J, Bevan M, Brutnell T, Buell C R, Cone K, Hake S, Jackson D, Kellogg E, Lawrence C, McCouch S, Mockler T, Moose S, Paterson A, Peterson T, Rokshar D, Souza G M, Springer N, Stein N, Timmermans M, Wang G L, Grotewold E:

A recommendation for naming transcription factor proteins in the grasses. Plant Physiol. 149 (2009) 4-6. https://dx.doi.org/10.1104/pp.108.128504

Hübner S, Höffken M, Oren E, Haseneyer G, Stein N, Graner A, Schmid K, Fridman E:

Strong correlation of wild barley (Hordeum spontaneum) population structure with temperature and precipitation variation. Mol. Ecol. 18 (2009) 1523-1536. https://dx.doi.org/10.1111/j.1365-294X.2009.04106.x

Mayer K F, Taudien S, Martis M, Simkova H, Suchankova P, Gundlach H, Wicker T, Petzold A, Felder M, Steuernagel B, Scholz U, Graner A, Platzer M, Dolezel J, Stein N:

Gene content and virtual gene order of barley chromosome 1H. Plant Physiol. 151 (2009) 496-505. https://dx.doi.org/10.1104/pp.109.142612

Schulte D, Close T J, Graner A, Langridge P, Matsumoto T, Muehlbauer G, Sato K, Schulman A H, Waugh R, Wise R P, Stein N:

The international barley sequencing consortium--at the threshold of efficient access to the barley genome. Plant Physiol. 149 (2009) 142-147. https://dx.doi.org/10.1104/pp.108.128967

Stein N:

Physical mapping in the Triticeae. In: Feuillet C, Muehlbauer G (Eds.): Genetics and genomics of the Triticeae, 1st ed. (Series: Plant genetics and genomics: crops and models, Vol. 7) New York, NY: Springer (2009) ISBN 978-0-387-77488-6, 317-335. https://dx.doi.org/10.1007/978-0-387-77489-3_11

Steuernagel B, Taudien S, Gundlach H, Seidel M, Ariyadasa R, Schulte D, Petzold A, Felder M, Graner A, Scholz U, Mayer K F, Platzer M, Stein N:

De novo 454 sequencing of barcoded BAC pools for comprehensive gene survey and genome analysis in the complex genome of barley. BMC Genomics 10 (2009) 547. https://dx.doi.org/10.1186/1471-2164-10-547

Thiel T, Graner A, Waugh R, Grosse I, Close T J, Stein N:

Evidence and evolutionary analysis of ancient whole-genome duplication in barley predating the divergence from rice. BMC Evol. Biol. 9 (2009) 209. https://dx.doi.org/10.1186/1471-2148-9-209

Turuspekov Y, Honda I, Watanabe Y, Stein N, Komatsuda T:

An inverted and micro-colinear genomic regions of rice and barley carrying the cly1 gene for cleistogamy. Breed. Sci. 59 (2009) 657-663. https://dx.doi.org/10.1270/jsbbs.59.657

Wicker T, Krattinger S G, Lagudah E S, Komatsuda T, Pourkheirandish M, Matsumoto T, Cloutier S, Reiser L, Kanamori H, Sato K, Perovic D, Stein N, Keller B:

Analysis of intraspecies diversity in wheat and barley genomes identifies breakpoints of ancient haplotypes and provides insight into the structure of diploid and hexaploid Triticeae gene pools. Plant Physiol. 149 (2009) 258-270. https://dx.doi.org/10.1104/pp.108.129734

Wicker T, Taudien S, Houben A, Keller B, Graner A, Platzer M, Stein N:

A whole-genome snapshot of 454 sequences exposes the composition of the barley genome and provides evidence for parallel evolution of genome size in wheat and barley. Plant J. 59 (2009) 712-722. https://dx.doi.org/10.1111/j.1365-313X.2009.03911.x


Kota R, Varshney R K, Prasad M, Zhang H, Stein N, Graner A:

EST-derived single nucleotide polymorphism markers for assembling genetic and physical maps of the barley genome. Funct. Integr. Genomics 8 (2008) 223-233. https://dx.doi.org/10.1007/s10142-007-0060-9

Sreenivasulu N, Usadel B, Winter A, Radchuk V, Scholz U, Stein N, Weschke W, Strickert M, Close T J, Stitt M, Graner A, Wobus U:

Barley grain maturation and germination: metabolic pathway and regulatory network commonalities and differences highlighted by New MapMan/PageMan profiling tools. Plant Physiol. 146 (2008) 1738-1758. https://dx.doi.org/10.1104/pp.107.111781

Waugh R, Rostoks N, Ramsay L, Marshall D, Thomas B, Druka A, Wannamaker S, Svensson J, Bhat P, Graner A, Stein N, Varshney R K, Kearsey M, Luo Z, Potokina E, Close T J:

Towards whole genome association genetic scans in barley. In: Molina-Cano J L, Christou P, Graner A, Hammer K, Jouve N, Keller B, Lasa J M, Powell W, Royo C, Shewry P, Stanca A M (Eds.): Cereal science and technology for feeding ten billion people: genomics era and beyond, Proceedings for the Meeting of the Eucarpia Cereal Section, Lleida (Spain), 13.-17.11.2006. (Series: Options Méditerranéennes, Series A, Séminaires Méditerranéens, Vol. 81) Zaragoza: CIHEAM / IRTA (2008) ISBN 2-85352-404-3, 99-102.

Wicker T, Narechania A, Sabot F, Stein J, Vu G T, Graner A, Ware D, Stein N:

Low-pass shotgun sequencing of the barley genome facilitates rapid identification of genes, conserved non-coding sequences and novel repeats. BMC Genomics 9 (2008) 518. https://dx.doi.org/10.1186/1471-2164-9-518


Altmann T, Strompen G, Gottwald S, Stein N, Hohmann U, Jung C, Holtgräwe D, Weisshaar B, Lunn J, Stitt M:

GABI-TILL: Zentrale Plattform zur funktionalen Untersuchung von Leitgenen in Feldfrüchten mit Hilfe der TILLING-Technologie. GenomXPress Sonderausgabe März (2007) 15.

Komatsuda T, Pourkheirandish M, He C F, Azhaguvel P, Kanamori H, Perovic D, Stein N, Graner A, Wicker T, Tagiri A, Lundqvist U, Fujimura T, Matsuoka M, Matsumoto T, Yano M:

Six-rowed barley originated from a mutation in a homeodomain-leucine zipper I-class homeobox gene. Proc. Natl. Acad. Sci. U.S.A. 104 (2007) 1424-1429. https://dx.doi.org/10.1073/pnas.0608580104

Kuenne C, Grosse I, Matthies I, Scholz U, Sretenovic-Rajicic T, Stein N, Stephanik A, Steuernagel B, Weise S:

Using data warehouse technology in crop plant bioinformatics. J. Integr. Bioinform. 4 (2007) 88. https://dx.doi.org/10.2390/biecoll-jib-2007-88

Pourkheirandish M, Wicker T, Stein N, Fujimura T, Komatsuda T:

Analysis of the barley chromosome 2 region containing the six-rowed spike gene vrs1 reveals a breakdown of rice-barley micro collinearity by a transposition. Theor. Appl. Genet. 114 (2007) 1357-1365. https://dx.doi.org/10.1007/s00122-007-0522-4

Stein N:

Triticeae genomics: advances in sequence analysis of large genome cereal crops. Chromosome Res. 15 (2007) 21-31. https://dx.doi.org/10.1007/s10577-006-1107-9

Stein N:

Cereal genome colinearity revisited - advances through cereal genomics. Vortr. Pflanzenzüch. 71 (2007) 282-288.

Stein N:

Der Countdown läuft - Wissenschaftler am IPK übernehmen führende Rolle in der Gersten-Genomforschung. GenomXPress 4 (2007) 4-6.

Stein N, Prasad M, Scholz U, Thiel T, Zhang H, Wolf M, Kota R, Varshney R K, Perovic D, Grosse I, Graner A:

A 1,000-loci transcript map of the barley genome: new anchoring points for integrative grass genomics. Theor. Appl. Genet. 114 (2007) 823-839. https://dx.doi.org/10.1007/s00122-006-0480-2

Stracke S, Presterl T, Stein N, Perovic D, Ordon F, Graner A:

Effects of introgression and recombination on haplotype structure and linkage disequilibrium surrounding a locus encoding Bymovirus resistance in barley. Genetics 175 (2007) 805-817. https://dx.doi.org/10.1534/genetics.106.063800

Varshney R K, Marcel T C, Ramsay L, Russell J, Röder M S, Stein N, Waugh R, Langridge P, Niks R E, Graner A:

A high density barley microsatellite consensus map with 775 SSR loci. Theor. Appl. Genet. 114 (2007) 1091-1103. https://dx.doi.org/10.1007/s00122-007-0503-7

Weidner A, Varshney R K, Buck-Sorlin G H, Stein N, Graner A, Börner A:

Salztoleranz bei Gerste – Assoziationskartierung kontra klassische QTL-Kartierung. Vortr. Pflanzenzücht. 72 (2007) 125-130.


Galiba G, Kocsy G, Vágúkfaövo A, Stein N, Schweizer P, Dubcovsky J, Cattivelli L:

Gene identification by transcript profiling and real time PCR during cold acclimation using wheat 5A chromosome substitution and recombinant lines. In: Börner A, Pánková K, Snape J W (Eds.): Proceedings of the 13th International EWAC Conference, 27 June - 1 July 2005 Prague, Czech Republic. (Series: European Wheat Aneuploid Co-Operative newsletter, Vol. 13) Gatersleben: Institut für Pflanzengenetik und Kulturpflanzenforschung (2006) 33-37.

Rossini L, Vecchietti A, Nicoloso L, Stein N, Franzago S, Salamini F, Pozzi C:

Candidate genes for barley mutants involved in plant architecture: an in silico approach. Theor. Appl. Genet. 112 (2006) 1073-1085. https://dx.doi.org/10.1007/s00122-006-0209-2

Rostoks N, Ramsay L, MacKenzie K, Cardle L, Bhat P R, Roose M L, Svensson J T, Stein N, Varshney R K, Marshall D F, Graner A, Close T J, Waugh R:

Recent history of artificial outcrossing facilitates whole-genome association mapping in elite inbred crop varieties. Proc. Natl. Acad. Sci. U.S.A. 103 (2006) 18656-18661. https://dx.doi.org/10.1073/pnas.0606133103

Varshney R K, Grosse I, Hähnel U, Siefken R, Prasad M, Stein N, Langridge P, Altschmied L, Graner A:

Genetic mapping and BAC assignment of EST-derived SSR markers shows non-uniform distribution of genes in the barley genome. Theor. Appl. Genet. 113 (2006) 239-250. https://dx.doi.org/10.1007/s00122-006-0289-z

Weidner A, Varshney R K, Buck-Sorlin G H, Stein N, Graner A, Börner A:

QTLs for salt tolerance in three different barley mapping populations. In: Börner A, Pánková K, Snape J W (Eds.): Proceedings of the 13th International EWAC Conference, 27 June - 1 July 2005 Prague, Czech Republic. (Series: European Wheat Aneuploid Co-Operative newsletter, Vol. 13) Gatersleben: Institut für Pflanzengenetik und Kulturpflanzenforschung (2006) 51-55.

Wicker T, Schlagenhauf E, Graner A, Close T J, Keller B, Stein N:

454 sequencing put to the test using the complex genome of barley. BMC Genomics 7 (2006) 275. https://dx.doi.org/10.1186/1471-2164-7-275

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